diff --git a/.github/workflows/linting.yml b/.github/workflows/linting.yml
index 7a527a3..b606e9e 100644
--- a/.github/workflows/linting.yml
+++ b/.github/workflows/linting.yml
@@ -66,7 +66,7 @@ jobs:
         run: nf-core -l lint_log.txt pipelines lint --release --dir ${GITHUB_WORKSPACE} --markdown lint_results.md
 
       - name: Save PR number
-        if: ${{ always() }}
+        if: ${{ always() && github.event.pull_request.number }}
         run: echo ${{ github.event.pull_request.number }} > PR_number.txt
 
       - name: Upload linting log file artifact
diff --git a/.github/workflows/linting_comment.yml b/.github/workflows/linting_comment.yml
index dd8c035..cb5232a 100644
--- a/.github/workflows/linting_comment.yml
+++ b/.github/workflows/linting_comment.yml
@@ -21,17 +21,20 @@ jobs:
         id: pr_number
         run: |
           if [ ! -f linting-logs/PR_number.txt ]; then
-            echo "PR number file not found"
-            exit 1
+            echo "No PR number file found (not a PR event), skipping comment"
+            echo "skip=true" >> $GITHUB_OUTPUT
+            exit 0
           fi
           PR_NUM=$(cat linting-logs/PR_number.txt)
           if ! [[ "$PR_NUM" =~ ^[0-9]+$ ]]; then
-            echo "Invalid PR number: $PR_NUM"
-            exit 1
+            echo "Invalid PR number: $PR_NUM, skipping comment"
+            echo "skip=true" >> $GITHUB_OUTPUT
+            exit 0
           fi
           echo "pr_number=$PR_NUM" >> $GITHUB_OUTPUT
 
       - name: Post PR comment
+        if: ${{ steps.pr_number.outputs.skip != 'true' }}
         uses: marocchino/sticky-pull-request-comment@773744901bac0e8cbb5a0dc842800d45e9b2b405 # v2
         with:
           GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
diff --git a/.nf-core.yml b/.nf-core.yml
index e62b86d..2dcf9f0 100644
--- a/.nf-core.yml
+++ b/.nf-core.yml
@@ -10,6 +10,7 @@ lint:
     - .github/PULL_REQUEST_TEMPLATE.md
     - .github/CONTRIBUTING.md
     - .github/workflows/branch.yml
+    - .github/workflows/linting.yml
     - .github/workflows/linting_comment.yml
     - .github/.dockstore.yml
     - docs/README.md