diff --git a/.github/autolabeler-config.json b/.github/autolabeler-config.json
index f071411a5..88d9d64c4 100644
--- a/.github/autolabeler-config.json
+++ b/.github/autolabeler-config.json
@@ -8,7 +8,12 @@
         "turnkey/**",
         "vm/**"
       ],
-      "excludeGlobs": []
+      "excludeGlobs": [
+        "**/headers/**",
+        "ct/headers/**",
+        "tools/headers/**",
+        "vm/headers/**"
+      ]
     }
   ],
   "update script": [
@@ -41,7 +46,12 @@
       "includeGlobs": [
         "vm/**"
       ],
-      "excludeGlobs": []
+      "excludeGlobs": [
+        "**/headers/**",
+        "ct/headers/**",
+        "tools/headers/**",
+        "vm/headers/**"
+      ]
     }
   ],
   "tools": [
diff --git a/.github/workflows/close-new-script-prs.yml b/.github/workflows/close-new-script-prs.yml
index 9ac26151b..acae8f577 100644
--- a/.github/workflows/close-new-script-prs.yml
+++ b/.github/workflows/close-new-script-prs.yml
@@ -28,6 +28,7 @@ jobs:
             const allowedBots = [
               "push-app-to-main[bot]",
               "push-app-to-main",
+              "community-scripts-pr-app[bot]",
               "community-scripts-pr-app"
             ];
 
@@ -62,7 +63,9 @@ jobs:
                 per_page: 100,
               });
               hasAddedScriptFile = files.some(
-                f => f.status === "added" && scriptPrefixes.some(p => f.filename.startsWith(p))
+                f => f.status === "added" &&
+                     !f.filename.includes("/headers/") &&
+                     scriptPrefixes.some(p => f.filename.startsWith(p))
               );
             } catch (error) {
               core.warning(`Could not list files for PR #${prNumber}: ${error.message}`);