• Fix: the incomplete-build shrink guard now stays armed when a chunk came back hollow, unparseable, or omitting files, so a run that silently lost content can no longer overwrite the existing graph with a smaller one; a complete run and a retry-recovered chunk are unaffected, and --allow-partial still overrides (#3105, thanks @abhay-codes07).
• Fix: graphify extract --force --code-only now fully rescans code (instead of skipping unchanged files and keeping stale import/alias resolution) while still carrying the existing document/semantic tier forward (#3125, thanks @hopstreax).
• Fix: a hyperedge carried from a prior graph.json now has its members routed through the dedup survivor remap, so it no longer dangles when one of its members is merged away; an unresolvable member is dropped gracefully (#3102, thanks @abhay-codes07).
• Fix: the cache's atexit stat-index flush no longer recreates a graphify-out/ tree that was deleted during the run, so a removed corpus stays removed (#2974, thanks @abhay-codes07).
• Fix: Leiden clustering canonicalizes undirected edge endpoints before sorting, so community assignments no longer drift across builds or machines from networkx yielding an edge's endpoints in a different order (thanks @ErichKinuya).
• Fix: a TypeScript/JavaScript new Foo() now emits a calls edge to the constructed class (member, chained, and generic forms), so constructor usage is visible; built-in globals like new Map() / new Promise() are not fabricated (#3116, thanks @hopstreax).
• Fix: an Elixir function whose only clause carries a when guard (def foo(x) when is_integer(x), do: ...) is now extracted, not dropped; multi-clause, multi-condition guards, and defp are handled (#3111, thanks @santhiprakash).
• Fix: Common Lisp node ids are now derived from the full path stem like every other extractor, so two same-basename .lisp files in different directories no longer collide on merge (thanks @guitelesc).
• Perf: Leiden clustering now calls the graspologic_native binding directly instead of importing the full graspologic package, avoiding its heavy import chain (umap / pynndescent / numba JIT); clustering output is unchanged, and it falls back to the graspologic wrapper and then NetworkX Louvain when the native binding is absent (#3104, thanks @Mohammad-Palla).
• Docs: the README now documents the git workflow for keeping the graph in sync — commits and branch switches rebuild automatically via the installed hooks, while git pull / git merge need a manual graphify update . (thanks @Mohammad-Palla).