release: bump version to 0.41.0

[resoltico]

Summary

• cut the 0.41.0 release line
• land the protected-book maintenance, CLI/discovery, bookkeeping-kernel, runtime-provenance, and tooling refactors
• tighten release publication by making repo hygiene fail on Git coordination locks and persisted gc.log state

Verification

• ./check.sh --console=plain
• ./scripts/test-verify-repo-hygiene.sh
• ./gradlew :contract:test --tests dev.erst.fingrind.contract.protocol.ProtocolOperationReferenceLintTest --console=plain --no-daemon