diff --git a/src/main/java/codechicken/nei/NEIClientConfig.java b/src/main/java/codechicken/nei/NEIClientConfig.java
index 34bd9f107..2a44c51ff 100644
--- a/src/main/java/codechicken/nei/NEIClientConfig.java
+++ b/src/main/java/codechicken/nei/NEIClientConfig.java
@@ -476,7 +476,6 @@ public static void bootNEI(World world) {
         RecipeInfo.load();
         LayoutManager.load();
         NEIController.load();
-        RecipeCatalysts.loadCatalystInfo();
         BookmarkContainerInfo.load();
         mainNEIConfigLoaded = true;
 
@@ -502,6 +501,8 @@ public void run() {
                     }
                 }
 
+                RecipeCatalysts.loadCatalystInfo();
+
                 // Set pluginNEIConfigLoaded here before posting the NEIConfigsLoadedEvent. This used to be the other
                 // way around, but apparently if your modpack includes 800 mods the event poster might not return in
                 // time and cause issues when loading a world for a second time as configLoaded is still false. This may
diff --git a/src/main/java/codechicken/nei/recipe/CatalystInfoList.java b/src/main/java/codechicken/nei/recipe/CatalystInfoList.java
index 255dec19a..219c52fa5 100644
--- a/src/main/java/codechicken/nei/recipe/CatalystInfoList.java
+++ b/src/main/java/codechicken/nei/recipe/CatalystInfoList.java
@@ -10,10 +10,8 @@
 
 import com.google.common.collect.ForwardingList;
 
-import codechicken.nei.NEIClientConfig;
 import codechicken.nei.NEIServerUtils;
 
-// Do not directly extend ArrayList, see Effective Java Item 16
 public class CatalystInfoList extends ForwardingList<CatalystInfo> {
 
     private final String handlerID;
@@ -34,16 +32,21 @@ protected List<CatalystInfo> delegate() {
     }
 
     @Override
-    public boolean add(@Nonnull CatalystInfo catalystInfo) {
-        if (contains(catalystInfo)) {
-            NEIClientConfig.logger.info(
-                    String.format(
-                            "catalyst %s is already registered to handler %s",
-                            catalystInfo.getStack().getDisplayName(),
-                            handlerID));
-            return false;
+    public boolean add(@Nonnull CatalystInfo element) {
+        return doAdd(element);
+    }
+
+    public boolean add(@Nonnull CatalystInfo catalystInfo, boolean overwrite) {
+        if (overwrite || !contains(catalystInfo)) {
+            return add(catalystInfo);
         }
-        super.add(catalystInfo);
+        return false;
+    }
+
+    private boolean doAdd(@Nonnull CatalystInfo catalystInfo) {
+        catalystInfoList
+                .removeIf(c -> NEIServerUtils.areStacksSameTypeCraftingWithNBT(c.getStack(), catalystInfo.getStack()));
+        catalystInfoList.add(catalystInfo);
         return true;
     }
 
diff --git a/src/main/java/codechicken/nei/recipe/RecipeCatalysts.java b/src/main/java/codechicken/nei/recipe/RecipeCatalysts.java
index 883d500c0..bd0fb605f 100644
--- a/src/main/java/codechicken/nei/recipe/RecipeCatalysts.java
+++ b/src/main/java/codechicken/nei/recipe/RecipeCatalysts.java
@@ -132,6 +132,8 @@ public static void loadCatalystInfo() {
         recipeCatalystMap.clear();
         URL handlerUrl = RecipeCatalysts.class.getResource("/assets/nei/csv/catalysts.csv");
 
+        resolveAdderQueue();
+
         URL url;
         if (fromJar) {
             url = handlerUrl;
@@ -208,13 +210,23 @@ public static void loadCatalystInfo() {
                     handlerID = handler;
                 }
 
-                addOrPut(recipeCatalystMap, handlerID, catalystInfo);
+                // Prefer info added by API if we're using default jar config.
+                // If not, user config overwrites it.
+                addOrPut(recipeCatalystMap, handlerID, catalystInfo, !fromJar);
             }
         } catch (Exception e) {
             NEIClientConfig.logger.warn("Error parsing CSV");
             e.printStackTrace();
         }
 
+        if (fromJar) {
+            resolveRemoverQueue();
+        }
+
+        updatePosition(getHeight(), true);
+    }
+
+    private static void resolveAdderQueue() {
         for (Map.Entry<String, CatalystInfoList> entry : catalystsAdderFromAPI.entrySet()) {
             String handlerID = entry.getKey();
             for (CatalystInfo catalyst : entry.getValue()) {
@@ -243,6 +255,9 @@ public static void loadCatalystInfo() {
                 }
             });
         }
+    }
+
+    private static void resolveRemoverQueue() {
         for (Map.Entry<String, List<ItemStack>> entry : catalystsRemoverFromAPI.entrySet()) {
             String handlerID = entry.getKey();
             if (recipeCatalystMap.containsKey(handlerID)) {
@@ -258,8 +273,6 @@ public static void loadCatalystInfo() {
                 entry.getValue().forEach(catalysts::remove);
             }
         }
-
-        updatePosition(getHeight(), true);
     }
 
     /**
@@ -275,8 +288,13 @@ public static String getRecipeID(IRecipeHandler handler) {
     }
 
     public static void addOrPut(Map<String, CatalystInfoList> map, String handlerID, CatalystInfo catalyst) {
+        addOrPut(map, handlerID, catalyst, false);
+    }
+
+    public static void addOrPut(Map<String, CatalystInfoList> map, String handlerID, CatalystInfo catalyst,
+            boolean overwrite) {
         if (map.containsKey(handlerID)) {
-            map.get(handlerID).add(catalyst);
+            map.get(handlerID).add(catalyst, overwrite);
         } else {
             map.put(handlerID, new CatalystInfoList(handlerID, catalyst));
         }