When you have been sideloading books, have you been properly EJECTING the device before you unplug it from the computer? Not doing that is probably the #1 culprit in corrupting the database. You might get away with not doing so for a while, but eventually it usually catches up with people if they aren't properly ejecting.
And it's not all that surprising that you're back on the old homescreen. It is currently in a test phase and random as to whether you get the new or old homescreen when you update firmware or sign out of your account.
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