# NousResearch/hermes-agent · Shallow graft pruning corrupts reflog-reachable boundaries

## Open now

- Nothing open on GitHub.

A regression in stale shallow graft pruning incorrectly drops grafts still needed by reflog-only commits. The members cover the bug report and multiple fix/repair attempts for preserving or recovering those boundaries safely.

## TL;DR

- 4 member(s): 0 open issue(s), 1 closed issue(s), 0 open PR(s), 1 merged PR(s), 2 PR(s) closed without merging.
- A fix was merged to main in PR #108888. Verify it addresses your case.
- **Recommended:** read PR #108888 (and any competing PRs below) before filing. Confirm the merged change covers your symptom.

## Maintainer resolution verdict

- Internal-tracker verdict over this cluster's issue members: `resolved` · deciding PR(s): `pr-108888`. This is distinct from the fix status above. Weigh it yourself.

## How this cluster was grouped

- Link evidence (`STRUCTURAL_SPANNING`): every member is connected by structural evidence: shared changed files, or a closing/superseded reference.
- Pairwise link density `0.50`: the share of member pairs that carry a link, counting a structural link in full and a relevance-only link at 0.36. `1.00` means every pair is linked.

## Closed / duplicate issues

- #108286: prune_stale_shallow_grafts() corrupts shallow checkouts: drops grafts still needed by reflog-only commits (regression of #105951's own fix, #108053)

## Prior & competing PRs

- **#108888: fix(cli): repair shallow boundaries dropped by the stale-graft prune and keep them pruned safely (#108286, salvage #108361)**. merged to main · fix tier `verified`
  - maintainer direction: category `merged`
  - files: `hermes_cli/gitlock.py`, `hermes_cli/update_cmd.py`, `tests/hermes_cli/test_shallow_boundary_repair.py`
- **#108290: fix(cli): preserve reflog-reachable shallow grafts**. closed without merge
  - maintainer direction: category `silent_close`; implication `active`
- **#108361: fix(cli): repair shallow boundaries already dropped by the stale-graft prune**. closed without merge
  - maintainer direction: category `implemented_elsewhere`; implication `superseded`; refs `#108888`

## Fix status

- Merged to main in PR #108888 (cited above). No release data is tracked. Verify downstream.
- Fix last verified (merged) `2026-09-12`.