Replace the inverted PRE_MERGE_FILES grep in the worktree-merge cleanup block with the git-log --diff-filter=D history check introduced for execute-phase.md by PR #2510. The old form deleted any .planning/ file absent from the pre-merge snapshot — including brand-new files such as SUMMARY.md — rather than only files with a confirmed deletion event on main. Remove the now-unused PRE_MERGE_FILES snapshot line. Adds a drift-guard test (node:test) asserting both workflows use WAS_DELETED and neither uses the bare PRE_MERGE_FILES grep form. Closes #3195 Co-authored-by: Claude Sonnet 4.6 <noreply@anthropic.com>
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@@ -785,9 +785,6 @@ After executor returns:
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[ -f .planning/STATE.md ] && cp .planning/STATE.md "$STATE_BACKUP" || true
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[ -f .planning/ROADMAP.md ] && cp .planning/ROADMAP.md "$ROADMAP_BACKUP" || true
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# Snapshot files on main to detect resurrections
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PRE_MERGE_FILES=$(git ls-files .planning/)
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# Pre-merge deletion guard: block merges that delete tracked .planning/ files
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DELETIONS=$(git diff --diff-filter=D --name-only HEAD..."$WT_BRANCH" 2>/dev/null || true)
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if [ -n "$DELETIONS" ]; then
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@@ -810,10 +807,17 @@ After executor returns:
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if [ -s "$ROADMAP_BACKUP" ]; then cp "$ROADMAP_BACKUP" .planning/ROADMAP.md; fi
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rm -f "$STATE_BACKUP" "$ROADMAP_BACKUP"
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# Remove files deleted on main but re-added by worktree (--no-ff guarantees a merge commit so HEAD~1 is reliable)
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# Detect files deleted on main but re-added by worktree merge
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# (e.g., archived phase directories that were intentionally removed)
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# A "resurrected" file must have a deletion event in main's ancestry —
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# brand-new files (e.g. SUMMARY.md just created by the agent) have no
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# such history and must NOT be removed (#2501, #3195).
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DELETED_FILES=$(git diff --diff-filter=A --name-only HEAD~1 -- .planning/ 2>/dev/null || true)
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for RESURRECTED in $DELETED_FILES; do
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if ! echo "$PRE_MERGE_FILES" | grep -qxF "$RESURRECTED"; then
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# Only delete if this file was previously tracked on main and then
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# deliberately removed (has a deletion event in git history).
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WAS_DELETED=$(git log --follow --diff-filter=D --name-only --format="" HEAD~1 -- "$RESURRECTED" 2>/dev/null | grep -c . || true)
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if [ "${WAS_DELETED:-0}" -gt 0 ]; then
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git rm -f "$RESURRECTED" 2>/dev/null || true
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fi
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done
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