Skipping the explicit PRAGMA wal_checkpoint(PASSIVE) in close() left
sqlite3.Connection.close() running SQLite's own last-connection PASSIVE
checkpoint, which still checkpoints the WAL and unlinks -wal/-shm on a
structurally corrupt file (E2E: the -wal vanished on close despite the
quarantine). Python 3.12+ exposes SQLITE_DBCONFIG_NO_CKPT_ON_CLOSE via
Connection.setconfig(); arm it in _halt_db_corrupt so the WAL image
survives close() for forensics/recovery. On 3.11 the switch does not
exist; the docstring and docs now say so instead of claiming sqlite3
cannot reach it at all.
Follow-up to #101095; flagged by JoaoMarcos44 on #101093.
A bare SQLITE_CORRUPT/NOTADB on a live write (not FTS-scoped, not a
replaced file) now sets a sticky per-instance flag: later writes fail
fast with StateDbCorruptError, the handle never reopens after close(),
and close() skips its explicit PASSIVE WAL checkpoint. Gateway and agent
flush paths divert pending transcripts to JSONL/spool like the replaced
case instead of retrying forever.
Field evidence: a handle that kept writing for ~50 minutes after the
first structural error checkpointed 15 pages under the wrong page
numbers on shutdown (page 1 <- messages_fts_trigram_data leaf), turning
"malformed" into "file is not a database".
Refs #90837, #90950, #97940, #89332, #45383
Co-Authored-By: Claude Fable 5.1 <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_01CNX8rNYHqA5pT4tAGSzXtb
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