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Originally Posted by LordP
Boiled down it's simply this: Is the database corrupt or not?
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It's hard to say. The database can be fine but the data in it corrupt and that causes issues too, but it's not detectable with database tools.
The only way to be 100% sure your database isn't corrupt is to delete it and let the kobo rebuild it. Obviously that's a solution of last resort, and I do it only when my kobo's misbehavior starts becoming intolerable.
Note also that there are *two* databases, and one of them is encrypted, so we can't even check that one. If the encrypted database is corrupt, the online accounts (kobo, overdrive at least) may not work or sync correctly.
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Does anyone know what the device does on reboot? Does it rewrite the database?
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I doubt it does anything special on reboot. What makes the reboot help is that background things that were keeping the database open are now gone. Assuming it doesn't immediately start a sync anyway.