diff --git a/.github/workflows/indexer-sync.yml b/.github/workflows/indexer-sync.yml
index e06b31ff9..da7ec49bf 100644
--- a/.github/workflows/indexer-sync.yml
+++ b/.github/workflows/indexer-sync.yml
@@ -12,6 +12,11 @@ on:
         required: false
         default: false
         type: boolean
+      debug_mode:
+        description: 'Enable debug logging'
+        required: false
+        default: false
+        type: boolean
 
 concurrency:
   group: ${{ github.workflow }}-${{ github.ref }}
@@ -52,7 +57,11 @@ jobs:
       - name: Run indexer sync
         run: |
           # Run the sync script with -z mode, automation mode, and push enabled
-          ./scripts/indexer-sync-v2.sh -z -a -p -b automated-indexer-sync -o origin
+          if [ "${{ github.event.inputs.debug_mode }}" = "true" ]; then
+            ./scripts/indexer-sync-v2.sh -z -a -p -b automated-indexer-sync -o origin -m debug
+          else
+            ./scripts/indexer-sync-v2.sh -z -a -p -b automated-indexer-sync -o origin
+          fi
 
       - name: Create or update pull request
         run: |
diff --git a/scripts/indexer-sync-v2.sh b/scripts/indexer-sync-v2.sh
index 003eead9f..3552fb3b1 100755
--- a/scripts/indexer-sync-v2.sh
+++ b/scripts/indexer-sync-v2.sh
@@ -568,7 +568,7 @@ resolve_conflicts() {
 }
 
 handle_yml_conflicts() {
-    yml_remove=$(git status --porcelain | grep yml | grep -vi "definitions/" | awk -F '[ADUMRC]{1,2} ' '{print $2}' | awk '{ gsub(/^[ \t]+|[ \t]+$/, ""); print }')
+    yml_remove=$(git status --porcelain | grep yml | grep -vi "definitions/" | grep -v "definitions-update" | awk -F '[ADUMRC]{1,2} ' '{print $2}' | awk '{ gsub(/^[ \t]+|[ \t]+$/, ""); print }')
     for def in $yml_remove; do
         log "DEBUG" "Removing non-definition yml; [$yml_remove]"
         if git ls-files | grep -q "^$yml_remove$"; then