diff --git a/.github/scripts/auto_resolve_ignored_conflicts.sh b/.github/scripts/auto_resolve_ignored_conflicts.sh
new file mode 100755
index 000000000..6c5170504
--- /dev/null
+++ b/.github/scripts/auto_resolve_ignored_conflicts.sh
@@ -0,0 +1,100 @@
+#!/usr/bin/env bash
+# Auto-resolve conflicts in files that should use "ours" merge strategy
+# These files are PR-specific and should keep the PR branch version when conflicts occur
+#
+# Usage: ./auto_resolve_ignored_conflicts.sh <base_branch>
+#
+# This script:
+# 1. Fetches the latest base branch
+# 2. Attempts to merge base into the current branch
+# 3. For known PR-specific files, auto-resolves using --ours
+# 4. Commits the resolution if successful
+
+set -e
+
+BASE_BRANCH="${1:-main}"
+
+# Files that should always keep the PR branch version (configured in .gitattributes with merge=ours)
+# but need manual resolution since the git driver isn't configured
+IGNORED_CONFLICT_FILES=(
+  "pr_body.md"
+  "ci/autofix/history.json"
+  "keepalive-metrics.ndjson"
+  "coverage-trend-history.ndjson"
+  "metrics-history.ndjson"
+  "residual-trend-history.ndjson"
+)
+
+echo "=== Auto-Resolve Ignored Conflict Files ==="
+echo "Base branch: $BASE_BRANCH"
+
+# Fetch latest base
+echo "Fetching origin/$BASE_BRANCH..."
+git fetch origin "$BASE_BRANCH" --quiet
+
+# Check if we're already up to date
+if git merge-base --is-ancestor "origin/$BASE_BRANCH" HEAD 2>/dev/null; then
+  echo "✓ Branch is already up to date with $BASE_BRANCH"
+  exit 0
+fi
+
+# Try to merge - this may create conflicts
+echo "Attempting merge from origin/$BASE_BRANCH..."
+if git merge "origin/$BASE_BRANCH" --no-edit 2>/dev/null; then
+  echo "✓ Merge completed without conflicts"
+  exit 0
+fi
+
+# Merge failed - check for conflicts in ignored files
+echo "Merge has conflicts. Checking for auto-resolvable files..."
+
+RESOLVED_COUNT=0
+REMAINING_CONFLICTS=()
+
+# Get list of unmerged files
+while IFS= read -r conflict_file; do
+  [ -z "$conflict_file" ] && continue
+
+  SHOULD_AUTO_RESOLVE=false
+  for ignored in "${IGNORED_CONFLICT_FILES[@]}"; do
+    if [[ "$conflict_file" == "$ignored" || "$conflict_file" == *"/$ignored" ]]; then
+      SHOULD_AUTO_RESOLVE=true
+      break
+    fi
+  done
+
+  if $SHOULD_AUTO_RESOLVE; then
+    echo "  → Auto-resolving: $conflict_file (keeping ours)"
+    git checkout --ours "$conflict_file" 2>/dev/null || true
+    git add "$conflict_file" 2>/dev/null || true
+    ((RESOLVED_COUNT++))
+  else
+    REMAINING_CONFLICTS+=("$conflict_file")
+  fi
+done < <(git diff --name-only --diff-filter=U 2>/dev/null)
+
+if [ "$RESOLVED_COUNT" -gt 0 ]; then
+  echo "✓ Auto-resolved $RESOLVED_COUNT file(s)"
+fi
+
+if [ ${#REMAINING_CONFLICTS[@]} -eq 0 ]; then
+  # All conflicts resolved - commit
+  echo "All conflicts resolved. Committing..."
+  git commit -m "fix: auto-resolve PR-specific file conflicts with $BASE_BRANCH
+
+Files resolved using --ours strategy:
+$(for f in "${IGNORED_CONFLICT_FILES[@]}"; do echo "- $f"; done)
+
+These files are PR-specific and should not inherit content from the base branch."
+  echo "✓ Merge conflict resolution committed"
+  exit 0
+else
+  echo ""
+  echo "⚠ Remaining conflicts require manual resolution:"
+  for f in "${REMAINING_CONFLICTS[@]}"; do
+    echo "  - $f"
+  done
+  echo ""
+  echo "Run 'git status' to see conflict details."
+  exit 1
+fi
diff --git a/templates/consumer-repo/.github/workflows/agents-keepalive-loop.yml b/templates/consumer-repo/.github/workflows/agents-keepalive-loop.yml
index adf370952..b88908c62 100644
--- a/templates/consumer-repo/.github/workflows/agents-keepalive-loop.yml
+++ b/templates/consumer-repo/.github/workflows/agents-keepalive-loop.yml
@@ -314,6 +314,97 @@ jobs:
             };
             await markAgentRunning({ github, context, core, inputs });
 
+  # Auto-resolve trivial conflicts (pr_body.md, etc.) before running Codex
+  resolve-trivial-conflicts:
+    name: Auto-resolve PR-specific files
+    needs:
+      - evaluate
+      - preflight
+    if: needs.evaluate.outputs.action == 'conflict'
+    runs-on: ubuntu-latest
+    outputs:
+      resolved: ${{ steps.resolve.outputs.resolved }}
+      remaining_conflicts: ${{ steps.resolve.outputs.remaining_conflicts }}
+    steps:
+      - name: Generate GitHub App token
+        id: app-token
+        if: ${{ vars.WORKFLOWS_APP_ID != '' }}
+        uses: actions/create-github-app-token@v2
+        with:
+          app-id: ${{ vars.WORKFLOWS_APP_ID }}
+          private-key: ${{ secrets.WORKFLOWS_APP_PRIVATE_KEY }}
+          owner: ${{ github.repository_owner }}
+
+      - name: Checkout PR branch
+        uses: actions/checkout@v6
+        with:
+          token: ${{ steps.app-token.outputs.token || secrets.GITHUB_TOKEN }}
+          ref: ${{ needs.evaluate.outputs.pr_ref }}
+          fetch-depth: 0
+
+      - name: Auto-resolve trivial conflicts
+        id: resolve
+        run: |
+          PR_NUM="${{ needs.evaluate.outputs.pr_number }}"
+          BASE_BRANCH=$(gh pr view "$PR_NUM" --json baseRefName --jq '.baseRefName')
+          echo "Base branch: $BASE_BRANCH"
+
+          # Configure git
+          git config user.name "github-actions[bot]"
+          git config user.email "github-actions[bot]@users.noreply.github.com"
+
+          # Fetch base branch
+          git fetch origin "$BASE_BRANCH"
+
+          # Try merge
+          echo "Attempting merge from origin/$BASE_BRANCH..."
+          if git merge "origin/$BASE_BRANCH" --no-edit 2>/dev/null; then
+            echo "✓ Merge completed without conflicts"
+            echo "resolved=true" >> "$GITHUB_OUTPUT"
+            echo "remaining_conflicts=0" >> "$GITHUB_OUTPUT"
+            exit 0
+          fi
+
+          # Files that should always keep the PR branch version
+          IGNORED_FILES=("pr_body.md" "ci/autofix/history.json" "keepalive-metrics.ndjson")
+          RESOLVED=0
+          REMAINING=0
+
+          # Get unmerged files
+          while IFS= read -r conflict_file; do
+            [ -z "$conflict_file" ] && continue
+            SHOULD_AUTO=false
+            for ignored in "${IGNORED_FILES[@]}"; do
+              if [[ "$conflict_file" == "$ignored" || "$conflict_file" == *"/$ignored" ]]; then
+                SHOULD_AUTO=true
+                break
+              fi
+            done
+
+            if $SHOULD_AUTO; then
+              echo "Auto-resolving: $conflict_file (keeping ours)"
+              git checkout --ours "$conflict_file" 2>/dev/null || true
+              git add "$conflict_file" 2>/dev/null || true
+              ((RESOLVED++))
+            else
+              ((REMAINING++))
+            fi
+          done < <(git diff --name-only --diff-filter=U 2>/dev/null)
+
+          echo "resolved=$RESOLVED" >> "$GITHUB_OUTPUT"
+          echo "remaining_conflicts=$REMAINING" >> "$GITHUB_OUTPUT"
+
+          if [ "$REMAINING" -eq 0 ] && [ "$RESOLVED" -gt 0 ]; then
+            git commit -m "fix: auto-resolve PR-specific file conflicts with base branch"
+            git push
+            echo "✓ Conflict resolution committed and pushed"
+          elif [ "$REMAINING" -gt 0 ]; then
+            echo "⚠ $REMAINING file(s) still have conflicts - Codex will handle these"
+            git merge --abort || true
+          fi
+        env:
+          GH_TOKEN: ${{ steps.app-token.outputs.token || secrets.GITHUB_TOKEN }}
+
   # Run Codex CLI for agent:codex PRs
   run-codex:
     name: Keepalive next task (Codex)
@@ -321,7 +412,11 @@ jobs:
       - evaluate
       - preflight
       - mark-running
-    if: needs.evaluate.outputs.agent_type == 'codex'
+      - resolve-trivial-conflicts
+    if: |
+      needs.evaluate.outputs.agent_type == 'codex' &&
+      (needs.resolve-trivial-conflicts.result == 'skipped' ||
+       needs.resolve-trivial-conflicts.outputs.remaining_conflicts != '0')
     uses: stranske/Workflows/.github/workflows/reusable-codex-run.yml@main
     secrets:
       CODEX_AUTH_JSON: ${{ secrets.CODEX_AUTH_JSON }}
@@ -341,6 +436,7 @@ jobs:
     needs:
       - evaluate
       - preflight
+      - resolve-trivial-conflicts
       - run-codex
     if: always() && needs.evaluate.outputs.pr_number != '' && needs.evaluate.outputs.pr_number != '0'
     runs-on: ubuntu-latest