diff --git a/CHANGELOG.md b/CHANGELOG.md
index dfa00a2aa..fbf9bfcde 100644
--- a/CHANGELOG.md
+++ b/CHANGELOG.md
@@ -4,6 +4,10 @@ All notable changes to this project will be documented in this file.
 
 ## v1.35.1
 
+### Features
+
+- [Multiple] Improvements for missing file checks (#4213 by: HebaruSan)
+
 ### Bugfixes
 
 - [Core] Skip corrupted .acf files in Steam library (#4200 by: HebaruSan)
diff --git a/Core/Extensions/EnumerableExtensions.cs b/Core/Extensions/EnumerableExtensions.cs
index 64a38025b..f5da93761 100644
--- a/Core/Extensions/EnumerableExtensions.cs
+++ b/Core/Extensions/EnumerableExtensions.cs
@@ -170,8 +170,9 @@ public static IEnumerable<T> DistinctBy<T, U>(this IEnumerable<T> seq, Func<T, U
         /// <param name="getNext">Function to go from one node to the next</param>
         /// <returns>All the nodes in the list as a sequence</returns>
         public static IEnumerable<T> TraverseNodes<T>(this T start, Func<T, T?> getNext)
+            where T : class
         {
-            for (T? t = start; t != null; t = getNext(t))
+            for (T? t = start; t != null; t = Utilities.DefaultIfThrows(() => getNext(t)))
             {
                 yield return t;
             }
diff --git a/Core/ModuleInstaller.cs b/Core/ModuleInstaller.cs
index de8d2047f..d440a00e3 100644
--- a/Core/ModuleInstaller.cs
+++ b/Core/ModuleInstaller.cs
@@ -582,23 +582,62 @@ public static List<InstallableFile> FindInstallableFiles(CkanModule module, stri
             }
         }
 
+        /// <summary>
+        /// Returns contents of an installed module
+        /// </summary>
+        public static IEnumerable<(string path, bool dir, bool exists)> GetModuleContents(
+                GameInstance                instance,
+                IReadOnlyCollection<string> installed,
+                HashSet<string>             filters)
+            => GetModuleContents(instance, installed,
+                                 installed.SelectMany(f => f.TraverseNodes(Path.GetDirectoryName)
+                                                            .Skip(1)
+                                                            .Where(s => s.Length > 0)
+                                                            .Select(CKANPathUtils.NormalizePath))
+                                          .ToHashSet(),
+                                 filters);
+
+        private static IEnumerable<(string path, bool dir, bool exists)> GetModuleContents(
+                GameInstance                instance,
+                IReadOnlyCollection<string> installed,
+                HashSet<string>             parents,
+                HashSet<string>             filters)
+            => installed.Where(f => !filters.Any(filt => f.Contains(filt)))
+                        .GroupBy(parents.Contains)
+                        .SelectMany(grp =>
+                            grp.Select(p => (path:   p,
+                                             dir:    grp.Key,
+                                             exists: grp.Key ? Directory.Exists(instance.ToAbsoluteGameDir(p))
+                                                             : File.Exists(instance.ToAbsoluteGameDir(p)))));
+
         /// <summary>
         /// Returns the module contents if and only if we have it
         /// available in our cache, empty sequence otherwise.
         ///
         /// Intended for previews.
         /// </summary>
-        public static IEnumerable<InstallableFile> GetModuleContents(NetModuleCache  Cache,
-                                                                     GameInstance    instance,
-                                                                     CkanModule      module,
-                                                                     HashSet<string> filters)
+        public static IEnumerable<(string path, bool dir, bool exists)> GetModuleContents(
+                NetModuleCache  Cache,
+                GameInstance    instance,
+                CkanModule      module,
+                HashSet<string> filters)
             => (Cache.GetCachedFilename(module) is string filename
-                    ? Utilities.DefaultIfThrows(() => FindInstallableFiles(module, filename, instance)
-                                                          .Where(instF => !filters.Any(filt =>
-                                                                  instF.destination != null
-                                                                  && instF.destination.Contains(filt))))
+                    ? GetModuleContents(instance,
+                                        Utilities.DefaultIfThrows(
+                                            () => FindInstallableFiles(module, filename, instance)),
+                                        filters)
                     : null)
-               ?? Enumerable.Empty<InstallableFile>();
+               ?? Enumerable.Empty<(string path, bool dir, bool exists)>();
+
+        private static IEnumerable<(string path, bool dir, bool exists)>? GetModuleContents(
+                GameInstance                  instance,
+                IEnumerable<InstallableFile>? installable,
+                HashSet<string>               filters)
+            => installable?.Where(instF => !filters.Any(filt => instF.destination != null
+                                                                && instF.destination.Contains(filt)))
+                           .Select(f => (path:   instance.ToRelativeGameDir(f.destination),
+                                         dir:    f.source.IsDirectory,
+                                         exists: true));
 
         #endregion
 
diff --git a/Core/Registry/IRegistryQuerier.cs b/Core/Registry/IRegistryQuerier.cs
index c8e34ad6f..7e31111d6 100644
--- a/Core/Registry/IRegistryQuerier.cs
+++ b/Core/Registry/IRegistryQuerier.cs
@@ -1,11 +1,12 @@
 using System;
-using System.IO;
 using System.Linq;
 using System.Collections.Generic;
 using System.Collections.ObjectModel;
 
+using Autofac;
 using log4net;
 
+using CKAN.Configuration;
 using CKAN.Versioning;
 using CKAN.Games;
 #if NETSTANDARD2_0
@@ -174,6 +175,8 @@ public static bool IsAutodetected(this IRegistryQuerier querier, string identifi
         public static bool HasUpdate(this IRegistryQuerier    querier,
                                      string                   identifier,
                                      GameInstance?            instance,
+                                     HashSet<string>          filters,
+                                     bool                     checkMissingFiles,
                                      out CkanModule?          latestMod,
                                      ICollection<CkanModule>? installed = null)
         {
@@ -202,11 +205,10 @@ public static bool HasUpdate(this IRegistryQuerier    querier,
             if (comp == -1
                 || (comp == 0 && !querier.MetadataChanged(identifier)
                               // Check if any of the files or directories are missing
-                              && (instance == null
+                              && (!checkMissingFiles
+                                  || instance == null
                                   || (querier.InstalledModule(identifier)
-                                             ?.Files
-                                              .Select(instance.ToAbsoluteGameDir)
-                                              .All(p => Directory.Exists(p) || File.Exists(p))
+                                             ?.AllFilesExist(instance, filters)
                                              // Manually installed, consider up to date
                                              ?? true))))
             {
@@ -222,14 +224,21 @@ public static bool HasUpdate(this IRegistryQuerier    querier,
 
         public static Dictionary<bool, List<CkanModule>> CheckUpgradeable(this IRegistryQuerier querier,
                                                                           GameInstance?         instance,
-                                                                          HashSet<string>       heldIdents)
+                                                                          HashSet<string>       heldIdents,
+                                                                          HashSet<string>?      ignoreMissingIdents = null)
         {
+            var filters = ServiceLocator.Container.Resolve<IConfiguration>()
+                                                  .GlobalInstallFilters
+                                                  .Concat(instance?.InstallFilters
+                                                                  ?? Enumerable.Empty<string>())
+                                                  .ToHashSet();
             // Get the absolute latest versions ignoring restrictions,
             // to break out of mutual version-depending deadlocks
             var unlimited = querier.Installed(false)
                                    .Keys
                                    .Select(ident => !heldIdents.Contains(ident)
-                                                    && querier.HasUpdate(ident, instance,
+                                                    && querier.HasUpdate(ident, instance, filters,
+                                                                         !ignoreMissingIdents?.Contains(ident) ?? true,
                                                                          out CkanModule? latest)
                                                     && latest is not null
                                                     && !latest.IsDLC
@@ -237,21 +246,29 @@ public static Dictionary<bool, List<CkanModule>> CheckUpgradeable(this IRegistry
                                                         : querier.GetInstalledVersion(ident))
                                    .OfType<CkanModule>()
                                    .ToList();
-            return querier.CheckUpgradeable(instance, heldIdents, unlimited);
+            return querier.CheckUpgradeable(instance, heldIdents, unlimited, filters, ignoreMissingIdents);
         }
 
         public static Dictionary<bool, List<CkanModule>> CheckUpgradeable(this IRegistryQuerier querier,
                                                                           GameInstance?         instance,
                                                                           HashSet<string>       heldIdents,
-                                                                          List<CkanModule>      initial)
+                                                                          List<CkanModule>      initial,
+                                                                          HashSet<string>?      filters             = null,
+                                                                          HashSet<string>?      ignoreMissingIdents = null)
         {
+            filters ??= ServiceLocator.Container.Resolve<IConfiguration>()
+                                                .GlobalInstallFilters
+                                                .Concat(instance?.InstallFilters
+                                                                ?? Enumerable.Empty<string>())
+                                                .ToHashSet();
             // Use those as the installed modules
             var upgradeable    = new List<CkanModule>();
             var notUpgradeable = new List<CkanModule>();
             foreach (var ident in initial.Select(module => module.identifier))
             {
                 if (!heldIdents.Contains(ident)
-                    && querier.HasUpdate(ident, instance,
+                    && querier.HasUpdate(ident, instance, filters,
+                                         !ignoreMissingIdents?.Contains(ident) ?? true,
                                          out CkanModule? latest, initial)
                     && latest is not null
                     && !latest.IsDLC)
diff --git a/Core/Registry/InstalledModule.cs b/Core/Registry/InstalledModule.cs
index 883375438..f6d23727b 100644
--- a/Core/Registry/InstalledModule.cs
+++ b/Core/Registry/InstalledModule.cs
@@ -1,4 +1,5 @@
 using System;
+using System.Linq;
 using System.ComponentModel;
 using System.Collections.Generic;
 using System.IO;
@@ -45,10 +46,10 @@ public class InstalledModule
         [JsonProperty]
         private Dictionary<string, InstalledModuleFile> installed_files;
 
-        public IEnumerable<string> Files       => installed_files.Keys;
-        public string              identifier  => source_module.identifier;
-        public CkanModule          Module      => source_module;
-        public DateTime            InstallTime => install_time;
+        public IReadOnlyCollection<string> Files       => installed_files.Keys;
+        public string                      identifier  => source_module.identifier;
+        public CkanModule                  Module      => source_module;
+        public DateTime                    InstallTime => install_time;
 
         public bool AutoInstalled
         {
@@ -132,6 +133,13 @@ public void Renormalise(GameInstance ksp)
 
         #endregion
 
+        public bool AllFilesExist(GameInstance    instance,
+                                  HashSet<string> filters)
+            // Don't make them reinstall files they've filtered out since installing
+            => Files.Where(f => !filters.Any(filt => f.Contains(filt)))
+                    .Select(instance.ToAbsoluteGameDir)
+                    .All(p => Directory.Exists(p) || File.Exists(p));
+
         public override string ToString()
             => string.Format(AutoInstalled ? Properties.Resources.InstalledModuleToStringAutoInstalled
                                            : Properties.Resources.InstalledModuleToString,
diff --git a/GUI/Controls/ManageMods.cs b/GUI/Controls/ManageMods.cs
index 80cb6207c..d6fca7c0c 100644
--- a/GUI/Controls/ManageMods.cs
+++ b/GUI/Controls/ManageMods.cs
@@ -335,24 +335,27 @@ private void LabelsContextMenuStrip_Opening(object? sender, CancelEventArgs? e)
 
         private void labelMenuItem_Click(object? sender, EventArgs? e)
         {
-            if (user != null && manager != null && currentInstance != null && SelectedModule != null)
+            if (user != null
+                && manager != null
+                && currentInstance != null
+                && SelectedModule != null
+                && sender is ToolStripMenuItem item
+                && item.Tag is ModuleLabel mlbl)
             {
-                var item   = sender    as ToolStripMenuItem;
-                var mlbl   = item?.Tag as ModuleLabel;
-                if (item?.Checked ?? false)
+                if (item.Checked)
                 {
-                    mlbl?.Add(currentInstance.game, SelectedModule.Identifier);
+                    mlbl.Add(currentInstance.game, SelectedModule.Identifier);
                 }
                 else
                 {
-                    mlbl?.Remove(currentInstance.game, SelectedModule.Identifier);
+                    mlbl.Remove(currentInstance.game, SelectedModule.Identifier);
                 }
                 var registry = RegistryManager.Instance(currentInstance, repoData).registry;
                 mainModList.ReapplyLabels(SelectedModule, Conflicts?.ContainsKey(SelectedModule) ?? false,
                                           currentInstance.Name, currentInstance.game, registry);
                 ModuleLabelList.ModuleLabels.Save(ModuleLabelList.DefaultPath);
                 UpdateHiddenTagsAndLabels();
-                if (mlbl?.HoldVersion ?? false)
+                if (mlbl.HoldVersion || mlbl.IgnoreMissingFiles)
                 {
                     UpdateCol.Visible = UpdateAllToolButton.Enabled =
                         mainModList.ResetHasUpdate(currentInstance, registry, ChangeSet, ModGrid.Rows);
@@ -538,19 +541,18 @@ public void MarkAllUpdates()
         {
             WithFrozenChangeset(() =>
             {
-                foreach (var gmod in mainModList.full_list_of_mod_rows
-                                                .Values
-                                                .Select(row => row.Tag)
-                                                .OfType<GUIMod>())
+                var checkboxes = mainModList.full_list_of_mod_rows
+                                            .Values
+                                            .Where(row => row.Tag is GUIMod {Identifier: string ident}
+                                                          && (!Main.Instance?.LabelsHeld(ident) ?? false))
+                                            .SelectWithCatch(row => row.Cells[UpdateCol.Index],
+                                                             (row, exc) => null)
+                                            .OfType<DataGridViewCheckBoxCell>();
+                foreach (var checkbox in checkboxes)
                 {
-                    if (gmod?.HasUpdate ?? false)
-                    {
-                        if (!Main.Instance?.LabelsHeld(gmod.Identifier) ?? false)
-                        {
-                            gmod.SelectedMod = gmod.LatestCompatibleMod;
-                        }
-                    }
+                    checkbox.Value = true;
                 }
+                ModGrid.CommitEdit(DataGridViewDataErrorContexts.Commit);
 
                 // only sort by Update column if checkbox in settings checked
                 if (guiConfig?.AutoSortByUpdate ?? false)
@@ -935,7 +937,7 @@ private void ModGrid_CellValueChanged(object? sender, DataGridViewCellEventArgs?
                                             : gmod.LatestCompatibleMod
                                         : gmod.InstalledMod?.Module;
 
-                                    if (nowChecked && gmod.SelectedMod == gmod.LatestCompatibleMod)
+                                    if (gmod.SelectedMod == gmod.LatestCompatibleMod)
                                     {
                                         // Reinstall, force update without change
                                         UpdateChangeSetAndConflicts(currentInstance,
diff --git a/GUI/Controls/ModInfo.cs b/GUI/Controls/ModInfo.cs
index fb5c77bc0..c1fe525e8 100644
--- a/GUI/Controls/ModInfo.cs
+++ b/GUI/Controls/ModInfo.cs
@@ -7,6 +7,7 @@
 
 using Autofac;
 
+using CKAN.Configuration;
 using CKAN.Versioning;
 using CKAN.GUI.Attributes;
 
@@ -138,6 +139,19 @@ private void UpdateHeaderInfo(GUIMod gmod, GameVersionCriteria crit)
                     var pageToAlert = module.IsCompatible(crit) ? RelationshipTabPage : VersionsTabPage;
                     pageToAlert.ImageKey = "Stop";
                 }
+                if (manager?.CurrentInstance is GameInstance inst)
+                {
+                    var filters = ServiceLocator.Container.Resolve<IConfiguration>()
+                                                          .GlobalInstallFilters
+                                                          .Concat(inst.InstallFilters)
+                                                          .ToHashSet();
+                    ContentTabPage.ImageKey = ModuleLabels.IgnoreMissingIdentifiers(inst)
+                                                          .Contains(gmod.Identifier)
+                                              || (gmod.InstalledMod?.AllFilesExist(inst, filters)
+                                                                   ?? true)
+                                                  ? ""
+                                                  : "Stop";
+                }
 
                 ModInfoTabControl.ResumeLayout();
             });
diff --git a/GUI/Controls/ModInfoTabs/Contents.cs b/GUI/Controls/ModInfoTabs/Contents.cs
index 898c87996..6b0a8df84 100644
--- a/GUI/Controls/ModInfoTabs/Contents.cs
+++ b/GUI/Controls/ModInfoTabs/Contents.cs
@@ -32,7 +32,8 @@ public GUIMod? SelectedModule
                 if (value != selectedModule)
                 {
                     selectedModule = value;
-                    Util.Invoke(ContentsPreviewTree, () => _UpdateModContentsTree(selectedModule?.ToModule()));
+                    Util.Invoke(ContentsPreviewTree, () => _UpdateModContentsTree(selectedModule?.InstalledMod,
+                                                                                  selectedModule?.ToModule()));
                 }
             }
             get => selectedModule;
@@ -41,9 +42,11 @@ public GUIMod? SelectedModule
         [ForbidGUICalls]
         public void RefreshModContentsTree()
         {
-            if (currentModContentsModule != null)
+            if (currentModContentsInstalledModule != null
+                || currentModContentsModule != null)
             {
-                Util.Invoke(ContentsPreviewTree, () => _UpdateModContentsTree(currentModContentsModule, true));
+                Util.Invoke(ContentsPreviewTree, () => _UpdateModContentsTree(currentModContentsInstalledModule,
+                                                                              currentModContentsModule, true));
             }
         }
 
@@ -51,9 +54,10 @@ public void RefreshModContentsTree()
 
         private static GameInstanceManager? manager => Main.Instance?.Manager;
 
-        private GUIMod?     selectedModule;
-        private CkanModule? currentModContentsModule;
-        private bool        cancelExpandCollapse;
+        private GUIMod?          selectedModule;
+        private InstalledModule? currentModContentsInstalledModule;
+        private CkanModule?      currentModContentsModule;
+        private bool             cancelExpandCollapse;
 
         private void ContentsPreviewTree_NodeMouseDoubleClick(object? sender, TreeNodeMouseClickEventArgs? e)
         {
@@ -104,7 +108,8 @@ private void ContentsOpenButton_Click(object? sender, EventArgs? e)
             }
         }
 
-        private void _UpdateModContentsTree(CkanModule? module, bool force = false)
+        private void _UpdateModContentsTree(InstalledModule? instMod, CkanModule? module,
+                                            bool force = false)
         {
             if (module == null)
             {
@@ -126,6 +131,7 @@ private void _UpdateModContentsTree(CkanModule? module, bool force = false)
                 else
                 {
                     currentModContentsModule = module;
+                    currentModContentsInstalledModule = instMod;
                 }
                 if (module.IsMetapackage)
                 {
@@ -165,13 +171,12 @@ private void _UpdateModContentsTree(CkanModule? module, bool force = false)
                             var filters = ServiceLocator.Container.Resolve<IConfiguration>().GlobalInstallFilters
                                                                   .Concat(inst.InstallFilters)
                                                                   .ToHashSet();
-                            var tuples = ModuleInstaller.GetModuleContents(manager.Cache, inst, module, filters)
-                                                        .Select(f => (path:   inst.ToRelativeGameDir(f.destination),
-                                                                      dir:    f.source.IsDirectory,
-                                                                      exists: !selectedModule.IsInstalled
-                                                                              || File.Exists(f.destination)
-                                                                              || Directory.Exists(f.destination)))
-                                                        .ToArray();
+                            var tuples = (instMod != null
+                                              ? ModuleInstaller.GetModuleContents(inst, instMod.Files, filters)
+                                              : ModuleInstaller.GetModuleContents(manager.Cache, inst,
+                                                                                  module, filters))
+                                         // Load fully in bg
+                                         .ToArray();
                             // Stop if user switched to another mod
                             if (rootNode.TreeView != null)
                             {
@@ -185,10 +190,11 @@ private void _UpdateModContentsTree(CkanModule? module, bool force = false)
                                                          dir, exists);
                                     }
                                     rootNode.ExpandAll();
-                                    var initialFocus = FirstMatching(rootNode,
-                                                                     n => n.ForeColor == Color.Red)
-                                                       ?? rootNode;
-                                    initialFocus.EnsureVisible();
+                                    // First scroll to the top
+                                    rootNode.EnsureVisible();
+                                    // Then scroll down to the first red node
+                                    FirstMatching(rootNode, n => n.ForeColor == Color.Red)
+                                        ?.EnsureVisible();
                                     ContentsPreviewTree.EndUpdate();
                                     UseWaitCursor = false;
                                 });
diff --git a/GUI/Dialogs/EditLabelsDialog.Designer.cs b/GUI/Dialogs/EditLabelsDialog.Designer.cs
index f82ad13a9..415d3c4a5 100644
--- a/GUI/Dialogs/EditLabelsDialog.Designer.cs
+++ b/GUI/Dialogs/EditLabelsDialog.Designer.cs
@@ -46,6 +46,7 @@ private void InitializeComponent()
             this.AlertOnInstallCheckBox = new System.Windows.Forms.CheckBox();
             this.RemoveOnInstallCheckBox = new System.Windows.Forms.CheckBox();
             this.HoldVersionCheckBox = new System.Windows.Forms.CheckBox();
+            this.IgnoreMissingFilesCheckBox = new System.Windows.Forms.CheckBox();
             this.CreateButton = new System.Windows.Forms.Button();
             this.CloseButton = new System.Windows.Forms.Button();
             this.SaveButton = new System.Windows.Forms.Button();
@@ -67,6 +68,8 @@ private void InitializeComponent()
             // 
             this.CreateButton.Anchor = ((System.Windows.Forms.AnchorStyles)(System.Windows.Forms.AnchorStyles.Bottom
             | System.Windows.Forms.AnchorStyles.Left));
+            this.CreateButton.AutoSize = true;
+            this.CreateButton.AutoSizeMode = System.Windows.Forms.AutoSizeMode.GrowOnly;
             this.CreateButton.FlatStyle = System.Windows.Forms.FlatStyle.Flat;
             this.CreateButton.Location = new System.Drawing.Point(10, 10);
             this.CreateButton.Name = "CreateButton";
@@ -121,6 +124,7 @@ private void InitializeComponent()
             this.EditDetailsPanel.Controls.Add(this.AlertOnInstallCheckBox);
             this.EditDetailsPanel.Controls.Add(this.RemoveOnInstallCheckBox);
             this.EditDetailsPanel.Controls.Add(this.HoldVersionCheckBox);
+            this.EditDetailsPanel.Controls.Add(this.IgnoreMissingFilesCheckBox);
             this.EditDetailsPanel.Controls.Add(this.SaveButton);
             this.EditDetailsPanel.Controls.Add(this.CancelEditButton);
             this.EditDetailsPanel.Controls.Add(this.DeleteButton);
@@ -192,6 +196,8 @@ private void InitializeComponent()
             // 
             this.ColorButton.Anchor = ((System.Windows.Forms.AnchorStyles)(System.Windows.Forms.AnchorStyles.Bottom
             | System.Windows.Forms.AnchorStyles.Left));
+            this.ColorButton.AutoSize = true;
+            this.ColorButton.AutoSizeMode = System.Windows.Forms.AutoSizeMode.GrowOnly;
             this.ColorButton.FlatStyle = System.Windows.Forms.FlatStyle.Flat;
             this.ColorButton.Location = new System.Drawing.Point(118, 40);
             this.ColorButton.Name = "ColorButton";
@@ -231,7 +237,7 @@ private void InitializeComponent()
             // 
             this.NotifyOnChangesCheckBox.Anchor = ((System.Windows.Forms.AnchorStyles)(System.Windows.Forms.AnchorStyles.Top | System.Windows.Forms.AnchorStyles.Left));
             this.NotifyOnChangesCheckBox.FlatStyle = System.Windows.Forms.FlatStyle.Flat;
-            this.NotifyOnChangesCheckBox.Location = new System.Drawing.Point(118, 130);
+            this.NotifyOnChangesCheckBox.Location = new System.Drawing.Point(118, 124);
             this.NotifyOnChangesCheckBox.Name = "NotifyOnChangesCheckBox";
             this.NotifyOnChangesCheckBox.Size = new System.Drawing.Size(200, 23);
             resources.ApplyResources(this.NotifyOnChangesCheckBox, "NotifyOnChangesCheckBox");
@@ -240,7 +246,7 @@ private void InitializeComponent()
             // 
             this.RemoveOnChangesCheckBox.Anchor = ((System.Windows.Forms.AnchorStyles)(System.Windows.Forms.AnchorStyles.Top | System.Windows.Forms.AnchorStyles.Left));
             this.RemoveOnChangesCheckBox.FlatStyle = System.Windows.Forms.FlatStyle.Flat;
-            this.RemoveOnChangesCheckBox.Location = new System.Drawing.Point(118, 160);
+            this.RemoveOnChangesCheckBox.Location = new System.Drawing.Point(118, 148);
             this.RemoveOnChangesCheckBox.Name = "RemoveOnChangesCheckBox";
             this.RemoveOnChangesCheckBox.Size = new System.Drawing.Size(200, 23);
             resources.ApplyResources(this.RemoveOnChangesCheckBox, "RemoveOnChangesCheckBox");
@@ -249,7 +255,7 @@ private void InitializeComponent()
             // 
             this.AlertOnInstallCheckBox.Anchor = ((System.Windows.Forms.AnchorStyles)(System.Windows.Forms.AnchorStyles.Top | System.Windows.Forms.AnchorStyles.Left));
             this.AlertOnInstallCheckBox.FlatStyle = System.Windows.Forms.FlatStyle.Flat;
-            this.AlertOnInstallCheckBox.Location = new System.Drawing.Point(118, 190);
+            this.AlertOnInstallCheckBox.Location = new System.Drawing.Point(118, 172);
             this.AlertOnInstallCheckBox.Name = "AlertOnInstallCheckBox";
             this.AlertOnInstallCheckBox.Size = new System.Drawing.Size(200, 23);
             resources.ApplyResources(this.AlertOnInstallCheckBox, "AlertOnInstallCheckBox");
@@ -258,7 +264,7 @@ private void InitializeComponent()
             // 
             this.RemoveOnInstallCheckBox.Anchor = ((System.Windows.Forms.AnchorStyles)(System.Windows.Forms.AnchorStyles.Top | System.Windows.Forms.AnchorStyles.Left));
             this.RemoveOnInstallCheckBox.FlatStyle = System.Windows.Forms.FlatStyle.Flat;
-            this.RemoveOnInstallCheckBox.Location = new System.Drawing.Point(118, 220);
+            this.RemoveOnInstallCheckBox.Location = new System.Drawing.Point(118, 196);
             this.RemoveOnInstallCheckBox.Name = "RemoveOnInstallCheckBox";
             this.RemoveOnInstallCheckBox.Size = new System.Drawing.Size(200, 23);
             resources.ApplyResources(this.RemoveOnInstallCheckBox, "RemoveOnInstallCheckBox");
@@ -267,15 +273,26 @@ private void InitializeComponent()
             // 
             this.HoldVersionCheckBox.Anchor = ((System.Windows.Forms.AnchorStyles)(System.Windows.Forms.AnchorStyles.Top | System.Windows.Forms.AnchorStyles.Left));
             this.HoldVersionCheckBox.FlatStyle = System.Windows.Forms.FlatStyle.Flat;
-            this.HoldVersionCheckBox.Location = new System.Drawing.Point(118, 250);
+            this.HoldVersionCheckBox.Location = new System.Drawing.Point(118, 220);
             this.HoldVersionCheckBox.Name = "HoldVersionCheckBox";
             this.HoldVersionCheckBox.Size = new System.Drawing.Size(200, 23);
             resources.ApplyResources(this.HoldVersionCheckBox, "HoldVersionCheckBox");
+            //
+            // IgnoreMissingFilesCheckBox
+            //
+            this.IgnoreMissingFilesCheckBox.Anchor = ((System.Windows.Forms.AnchorStyles)(System.Windows.Forms.AnchorStyles.Top | System.Windows.Forms.AnchorStyles.Left));
+            this.IgnoreMissingFilesCheckBox.FlatStyle = System.Windows.Forms.FlatStyle.Flat;
+            this.IgnoreMissingFilesCheckBox.Location = new System.Drawing.Point(118, 244);
+            this.IgnoreMissingFilesCheckBox.Name = "IgnoreMissingFilesCheckBox";
+            this.IgnoreMissingFilesCheckBox.Size = new System.Drawing.Size(200, 23);
+            resources.ApplyResources(this.IgnoreMissingFilesCheckBox, "IgnoreMissingFilesCheckBox");
             // 
             // SaveButton
             // 
             this.SaveButton.Anchor = ((System.Windows.Forms.AnchorStyles)(System.Windows.Forms.AnchorStyles.Bottom
             | System.Windows.Forms.AnchorStyles.Left));
+            this.SaveButton.AutoSize = true;
+            this.SaveButton.AutoSizeMode = System.Windows.Forms.AutoSizeMode.GrowOnly;
             this.SaveButton.FlatStyle = System.Windows.Forms.FlatStyle.Flat;
             this.SaveButton.Location = new System.Drawing.Point(38, 320);
             this.SaveButton.Name = "SaveButton";
@@ -289,6 +306,8 @@ private void InitializeComponent()
             // 
             this.CancelEditButton.Anchor = ((System.Windows.Forms.AnchorStyles)(System.Windows.Forms.AnchorStyles.Bottom
             | System.Windows.Forms.AnchorStyles.Left));
+            this.CancelEditButton.AutoSize = true;
+            this.CancelEditButton.AutoSizeMode = System.Windows.Forms.AutoSizeMode.GrowOnly;
             this.CancelEditButton.FlatStyle = System.Windows.Forms.FlatStyle.Flat;
             this.CancelEditButton.Location = new System.Drawing.Point(118, 320);
             this.CancelEditButton.Name = "CancelEditButton";
@@ -302,6 +321,8 @@ private void InitializeComponent()
             // 
             this.DeleteButton.Anchor = ((System.Windows.Forms.AnchorStyles)(System.Windows.Forms.AnchorStyles.Bottom
             | System.Windows.Forms.AnchorStyles.Left));
+            this.DeleteButton.AutoSize = true;
+            this.DeleteButton.AutoSizeMode = System.Windows.Forms.AutoSizeMode.GrowOnly;
             this.DeleteButton.FlatStyle = System.Windows.Forms.FlatStyle.Flat;
             this.DeleteButton.Location = new System.Drawing.Point(198, 320);
             this.DeleteButton.Name = "DeleteButton";
@@ -315,6 +336,8 @@ private void InitializeComponent()
             // 
             this.CloseButton.Anchor = ((System.Windows.Forms.AnchorStyles)(System.Windows.Forms.AnchorStyles.Bottom
             | System.Windows.Forms.AnchorStyles.Left));
+            this.CloseButton.AutoSize = true;
+            this.CloseButton.AutoSizeMode = System.Windows.Forms.AutoSizeMode.GrowOnly;
             this.CloseButton.FlatStyle = System.Windows.Forms.FlatStyle.Flat;
             this.CloseButton.Location = new System.Drawing.Point(10, 397);
             this.CloseButton.Name = "CloseButton";
@@ -362,6 +385,7 @@ private void InitializeComponent()
         private System.Windows.Forms.CheckBox AlertOnInstallCheckBox;
         private System.Windows.Forms.CheckBox RemoveOnInstallCheckBox;
         private System.Windows.Forms.CheckBox HoldVersionCheckBox;
+        private System.Windows.Forms.CheckBox IgnoreMissingFilesCheckBox;
         private System.Windows.Forms.Label ColorLabel;
         private System.Windows.Forms.Button ColorButton;
         private System.Windows.Forms.Button CreateButton;
diff --git a/GUI/Dialogs/EditLabelsDialog.cs b/GUI/Dialogs/EditLabelsDialog.cs
index f791a148b..9867ddcb1 100644
--- a/GUI/Dialogs/EditLabelsDialog.cs
+++ b/GUI/Dialogs/EditLabelsDialog.cs
@@ -33,6 +33,7 @@ public EditLabelsDialog(IUser user, GameInstanceManager manager, ModuleLabelList
             ToolTip.SetToolTip(AlertOnInstallCheckBox, Properties.Resources.EditLabelsToolTipAlertOnInstall);
             ToolTip.SetToolTip(RemoveOnInstallCheckBox, Properties.Resources.EditLabelsToolTipRemoveOnInstall);
             ToolTip.SetToolTip(HoldVersionCheckBox, Properties.Resources.EditLabelsToolTipHoldVersion);
+            ToolTip.SetToolTip(IgnoreMissingFilesCheckBox, Properties.Resources.EditLabelsToolTipIgnoreMissingFiles);
             ToolTip.SetToolTip(MoveUpButton, Properties.Resources.EditLabelsToolTipMoveUp);
             ToolTip.SetToolTip(MoveDownButton, Properties.Resources.EditLabelsToolTipMoveDown);
         }
@@ -204,6 +205,7 @@ private void StartEdit(ModuleLabel lbl)
             AlertOnInstallCheckBox.Checked       = lbl.AlertOnInstall;
             RemoveOnInstallCheckBox.Checked      = lbl.RemoveOnInstall;
             HoldVersionCheckBox.Checked          = lbl.HoldVersion;
+            IgnoreMissingFilesCheckBox.Checked   = lbl.IgnoreMissingFiles;
 
             DeleteButton.Enabled = labels.Labels.Contains(lbl);
             EnableDisableUpDownButtons();
@@ -300,12 +302,13 @@ private bool TrySave(out string errMsg)
                     || string.IsNullOrWhiteSpace(InstanceNameComboBox.SelectedItem.ToString())
                         ? null
                         : InstanceNameComboBox.SelectedItem.ToString();
-                currentlyEditing.Hide            = HideFromOtherFiltersCheckBox.Checked;
-                currentlyEditing.NotifyOnChange  = NotifyOnChangesCheckBox.Checked;
-                currentlyEditing.RemoveOnChange  = RemoveOnChangesCheckBox.Checked;
-                currentlyEditing.AlertOnInstall  = AlertOnInstallCheckBox.Checked;
-                currentlyEditing.RemoveOnInstall = RemoveOnInstallCheckBox.Checked;
-                currentlyEditing.HoldVersion     = HoldVersionCheckBox.Checked;
+                currentlyEditing.Hide               = HideFromOtherFiltersCheckBox.Checked;
+                currentlyEditing.NotifyOnChange     = NotifyOnChangesCheckBox.Checked;
+                currentlyEditing.RemoveOnChange     = RemoveOnChangesCheckBox.Checked;
+                currentlyEditing.AlertOnInstall     = AlertOnInstallCheckBox.Checked;
+                currentlyEditing.RemoveOnInstall    = RemoveOnInstallCheckBox.Checked;
+                currentlyEditing.HoldVersion        = HoldVersionCheckBox.Checked;
+                currentlyEditing.IgnoreMissingFiles = IgnoreMissingFilesCheckBox.Checked;
                 if (!labels.Labels.Contains(currentlyEditing))
                 {
                     labels.Labels = labels.Labels
@@ -367,16 +370,16 @@ private bool HasChanges()
                               ? null
                               : InstanceNameComboBox.SelectedItem.ToString();
             return EditDetailsPanel.Visible && currentlyEditing != null
-                && (   currentlyEditing.Name            != NameTextBox.Text
-                    || currentlyEditing.Color           != ColorButton.BackColor
-                    || currentlyEditing.InstanceName    != newInst
-                    || currentlyEditing.Hide            != HideFromOtherFiltersCheckBox.Checked
-                    || currentlyEditing.NotifyOnChange  != NotifyOnChangesCheckBox.Checked
-                    || currentlyEditing.RemoveOnChange  != RemoveOnChangesCheckBox.Checked
-                    || currentlyEditing.AlertOnInstall  != AlertOnInstallCheckBox.Checked
-                    || currentlyEditing.RemoveOnInstall != RemoveOnInstallCheckBox.Checked
-                    || currentlyEditing.HoldVersion     != HoldVersionCheckBox.Checked
-                );
+                && (   currentlyEditing.Name               != NameTextBox.Text
+                    || currentlyEditing.Color              != ColorButton.BackColor
+                    || currentlyEditing.InstanceName       != newInst
+                    || currentlyEditing.Hide               != HideFromOtherFiltersCheckBox.Checked
+                    || currentlyEditing.NotifyOnChange     != NotifyOnChangesCheckBox.Checked
+                    || currentlyEditing.RemoveOnChange     != RemoveOnChangesCheckBox.Checked
+                    || currentlyEditing.AlertOnInstall     != AlertOnInstallCheckBox.Checked
+                    || currentlyEditing.RemoveOnInstall    != RemoveOnInstallCheckBox.Checked
+                    || currentlyEditing.HoldVersion        != HoldVersionCheckBox.Checked
+                    || currentlyEditing.IgnoreMissingFiles != IgnoreMissingFilesCheckBox.Checked);
         }
 
         private          ModuleLabel?    currentlyEditing;
diff --git a/GUI/Dialogs/EditLabelsDialog.resx b/GUI/Dialogs/EditLabelsDialog.resx
index 46082b6fb..d48c141b4 100644
--- a/GUI/Dialogs/EditLabelsDialog.resx
+++ b/GUI/Dialogs/EditLabelsDialog.resx
@@ -130,6 +130,7 @@
   <data name="AlertOnInstallCheckBox.Text" xml:space="preserve"><value>Alert on install</value></data>
   <data name="RemoveOnInstallCheckBox.Text" xml:space="preserve"><value>Remove on install</value></data>
   <data name="HoldVersionCheckBox.Text" xml:space="preserve"><value>Don't upgrade</value></data>
+  <data name="IgnoreMissingFilesCheckBox.Text" xml:space="preserve"><value>Ignore missing files</value></data>
   <data name="CloseButton.Text" xml:space="preserve"><value>Close</value></data>
   <data name="SaveButton.Text" xml:space="preserve"><value>Save</value></data>
   <data name="CancelEditButton.Text" xml:space="preserve"><value>Cancel</value></data>
diff --git a/GUI/Dialogs/InstallFiltersDialog.cs b/GUI/Dialogs/InstallFiltersDialog.cs
index e9e1a10d6..6c312d163 100644
--- a/GUI/Dialogs/InstallFiltersDialog.cs
+++ b/GUI/Dialogs/InstallFiltersDialog.cs
@@ -22,6 +22,8 @@ public InstallFiltersDialog(IConfiguration globalConfig, GameInstance instance)
             this.instance     = instance;
         }
 
+        public bool Changed { get; private set; } = false;
+
         /// <summary>
         /// Open the user guide when the user presses F1
         /// </summary>
@@ -48,8 +50,12 @@ private void InstallFiltersDialog_Load(object? sender, EventArgs? e)
 
         private void InstallFiltersDialog_Closing(object? sender, CancelEventArgs? e)
         {
-            globalConfig.GlobalInstallFilters = GlobalFiltersTextBox.Text.Split(delimiters, StringSplitOptions.RemoveEmptyEntries);
-            instance.InstallFilters = InstanceFiltersTextBox.Text.Split(delimiters, StringSplitOptions.RemoveEmptyEntries);
+            var newGlobal = GlobalFiltersTextBox.Text.Split(delimiters, StringSplitOptions.RemoveEmptyEntries);
+            var newInstance = InstanceFiltersTextBox.Text.Split(delimiters, StringSplitOptions.RemoveEmptyEntries);
+            Changed = !globalConfig.GlobalInstallFilters.SequenceEqual(newGlobal)
+                      || !instance.InstallFilters.SequenceEqual(newInstance);
+            globalConfig.GlobalInstallFilters = newGlobal;
+            instance.InstallFilters = newInstance;
         }
 
         private void AddMiniAVCButton_Click(object? sender, EventArgs? e)
@@ -57,8 +63,7 @@ private void AddMiniAVCButton_Click(object? sender, EventArgs? e)
             GlobalFiltersTextBox.Text = string.Join(Environment.NewLine,
                 GlobalFiltersTextBox.Text.Split(delimiters, StringSplitOptions.RemoveEmptyEntries)
                     .Concat(miniAVC)
-                    .Distinct()
-            );
+                    .Distinct());
         }
 
         private readonly IConfiguration globalConfig;
diff --git a/GUI/Labels/ModuleLabel.cs b/GUI/Labels/ModuleLabel.cs
index e8b1b154e..99e5ebfad 100644
--- a/GUI/Labels/ModuleLabel.cs
+++ b/GUI/Labels/ModuleLabel.cs
@@ -57,6 +57,10 @@ public ModuleLabel(string name)
         [DefaultValue(false)]
         public bool    HoldVersion;
 
+        [JsonProperty("ignore_missing_files", DefaultValueHandling = DefaultValueHandling.IgnoreAndPopulate)]
+        [DefaultValue(false)]
+        public bool    IgnoreMissingFiles;
+
         [JsonProperty("module_identifiers_by_game", NullValueHandling = NullValueHandling.Ignore)]
         [JsonConverter(typeof(JsonToGamesDictionaryConverter))]
         private readonly Dictionary<string, HashSet<string>> ModuleIdentifiers =
diff --git a/GUI/Labels/ModuleLabelList.cs b/GUI/Labels/ModuleLabelList.cs
index 902d97c12..2bd084199 100644
--- a/GUI/Labels/ModuleLabelList.cs
+++ b/GUI/Labels/ModuleLabelList.cs
@@ -83,5 +83,10 @@ public IEnumerable<string> HeldIdentifiers(GameInstance inst)
             => LabelsFor(inst.Name).Where(l => l.HoldVersion)
                                    .SelectMany(l => l.IdentifiersFor(inst.game))
                                    .Distinct();
+
+        public IEnumerable<string> IgnoreMissingIdentifiers(GameInstance inst)
+            => LabelsFor(inst.Name).Where(l => l.IgnoreMissingFiles)
+                                   .SelectMany(l => l.IdentifiersFor(inst.game))
+                                   .Distinct();
     }
 }
diff --git a/GUI/Main/Main.cs b/GUI/Main/Main.cs
index 2211e12aa..ebb4f2384 100644
--- a/GUI/Main/Main.cs
+++ b/GUI/Main/Main.cs
@@ -724,6 +724,12 @@ private void installFiltersToolStripMenuItem_Click(object? sender, EventArgs? e)
                 var dlg = new InstallFiltersDialog(ServiceLocator.Container.Resolve<IConfiguration>(), CurrentInstance);
                 dlg.ShowDialog(this);
                 Enabled = true;
+                if (dlg.Changed)
+                {
+                    // The Update checkbox might appear or disappear if missing files were or are filtered out
+                    RefreshModList(false);
+                    ModInfo.RefreshModContentsTree();
+                }
             }
         }
 
diff --git a/GUI/Main/MainLabels.cs b/GUI/Main/MainLabels.cs
index c08a2591e..f7089c261 100644
--- a/GUI/Main/MainLabels.cs
+++ b/GUI/Main/MainLabels.cs
@@ -68,6 +68,11 @@ public bool LabelsHeld(string identifier)
                 && ModuleLabelList.ModuleLabels.LabelsFor(CurrentInstance.Name)
                                                .Any(l => l.HoldVersion && l.ContainsModule(CurrentInstance.game, identifier));
 
+        public bool LabelsIgnoreMissing(string identifier)
+            => CurrentInstance != null
+                && ModuleLabelList.ModuleLabels.LabelsFor(CurrentInstance.Name)
+                                               .Any(l => l.IgnoreMissingFiles && l.ContainsModule(CurrentInstance.game, identifier));
+
         #endregion
     }
 }
diff --git a/GUI/Model/ModList.cs b/GUI/Model/ModList.cs
index be46fbf74..2a12b8bc7 100644
--- a/GUI/Model/ModList.cs
+++ b/GUI/Model/ModList.cs
@@ -470,14 +470,17 @@ public HashSet<ModChange> ComputeUserChangeSet(IRegistryQuerier     registry,
                                          // Skip reinstalls
                                          .Where(upg => upg.Mod != upg.targetMod)
                                          .ToArray();
-                if (upgrades.Length > 0)
+                if (upgrades.Length > 0 && instance != null)
                 {
                     var upgradeable = registry.CheckUpgradeable(instance,
                                                                 // Hold identifiers not chosen for upgrading
                                                                 registry.Installed(false)
                                                                         .Select(kvp => kvp.Key)
                                                                         .Except(upgrades.Select(ch => ch.Mod.identifier))
-                                                                        .ToHashSet())
+                                                                        .ToHashSet(),
+                                                                ModuleLabelList.ModuleLabels
+                                                                               .IgnoreMissingIdentifiers(instance)
+                                                                               .ToHashSet())
                                               [true]
                                               .ToDictionary(m => m.identifier,
                                                             m => m);
@@ -523,6 +526,8 @@ public bool ResetHasUpdate(GameInstance              inst,
         {
             var upgGroups = registry.CheckUpgradeable(inst,
                                                       ModuleLabelList.ModuleLabels.HeldIdentifiers(inst)
+                                                                                  .ToHashSet(),
+                                                      ModuleLabelList.ModuleLabels.IgnoreMissingIdentifiers(inst)
                                                                                   .ToHashSet());
             var dlls = registry.InstalledDlls.ToList();
             foreach ((var upgradeable, var mods) in upgGroups)
@@ -559,8 +564,13 @@ private void CheckRowUpgradeable(GameInstance              inst,
                         full_list_of_mod_rows[ident] =
                             MakeRow(gmod, ChangeSet, inst.Name, inst.game);
                     var rowIndex = row.Index;
+                    var selected = row.Selected;
                     rows.Remove(row);
                     rows.Insert(rowIndex, newRow);
+                    if (selected)
+                    {
+                        rows[rowIndex].Selected = true;
+                    }
                 }
             }
         }
@@ -583,14 +593,16 @@ public IEnumerable<GUIMod> GetGUIMods(IRegistryQuerier      registry,
                           config?.HideEpochs ?? false, config?.HideV ?? false);
 
         private static IEnumerable<GUIMod> GetGUIMods(IRegistryQuerier      registry,
-                                               RepositoryDataManager repoData,
-                                               GameInstance          inst,
-                                               GameVersionCriteria   versionCriteria,
-                                               HashSet<string>       installedIdents,
-                                               bool                  hideEpochs,
-                                               bool                  hideV)
+                                                      RepositoryDataManager repoData,
+                                                      GameInstance          inst,
+                                                      GameVersionCriteria   versionCriteria,
+                                                      HashSet<string>       installedIdents,
+                                                      bool                  hideEpochs,
+                                                      bool                  hideV)
             => registry.CheckUpgradeable(inst,
                                          ModuleLabelList.ModuleLabels.HeldIdentifiers(inst)
+                                                                     .ToHashSet(),
+                                         ModuleLabelList.ModuleLabels.IgnoreMissingIdentifiers(inst)
                                                                      .ToHashSet())
                        .SelectMany(kvp => kvp.Value
                                              .Select(mod => registry.IsAutodetected(mod.identifier)
diff --git a/GUI/Properties/Resources.resx b/GUI/Properties/Resources.resx
index 4a496cb43..deb956b23 100644
--- a/GUI/Properties/Resources.resx
+++ b/GUI/Properties/Resources.resx
@@ -417,6 +417,7 @@ Are you sure you want to skip this change?</value></data>
   <data name="EditLabelsToolTipAlertOnInstall" xml:space="preserve"><value>If checked, the change set screen will alert you if this mod is about to be installed</value></data>
   <data name="EditLabelsToolTipRemoveOnInstall" xml:space="preserve"><value>If checked, modules will be removed from this label if they are installed</value></data>
   <data name="EditLabelsToolTipHoldVersion" xml:space="preserve"><value>If checked, modules will not be upgraded</value></data>
+  <data name="EditLabelsToolTipIgnoreMissingFiles" xml:space="preserve"><value>If checked, you will not be prompted to re-install missing files for modules with this label</value></data>
   <data name="EditLabelsToolTipMoveUp" xml:space="preserve"><value>Move up</value></data>
   <data name="EditLabelsToolTipMoveDown" xml:space="preserve"><value>Move down</value></data>
   <data name="MainLabelsUpdateMessage" xml:space="preserve"><value>Some of your watched mods have updated:
diff --git a/Tests/Core/Registry/Registry.cs b/Tests/Core/Registry/Registry.cs
index 277f76352..a590d8861 100644
--- a/Tests/Core/Registry/Registry.cs
+++ b/Tests/Core/Registry/Registry.cs
@@ -271,7 +271,7 @@ public void HasUpdate_WithUpgradeableManuallyInstalledMod_ReturnsTrue()
                 });
 
                 // Act
-                bool has = registry.HasUpdate(mod.identifier, gameInst, out _);
+                bool has = registry.HasUpdate(mod.identifier, gameInst, new HashSet<string>(), false, out _);
 
                 // Assert
                 Assert.IsTrue(has, "Can't upgrade manually installed DLL");
@@ -327,7 +327,8 @@ public void HasUpdate_OtherModDependsOnCurrent_ReturnsFalse()
                 GameVersionCriteria crit = new GameVersionCriteria(olderDepMod?.ksp_version);
 
                 // Act
-                bool has = registry.HasUpdate(olderDepMod?.identifier!, gameInst, out _,
+                bool has = registry.HasUpdate(olderDepMod?.identifier!, gameInst, new HashSet<string>(), false,
+                                              out _,
                                               registry.InstalledModules
                                                       .Select(im => im.Module)
                                                       .ToList());