1) stop the sync. 2 way sync is what got you in this mess. (a backup sync may be OK, but pause it when using Calibre, as it can lock files that
Calibre may be trying to update)
2) BACKUP what you have (just in case step 3 goes south)
3) On the Library Icon: Library Maintenance: Restore Database. This reads those OPF files you saw and rebuilds the DB
IF that fails DO NOTHING ELSE until you check back here. Every false step hurts a full recovery task
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