Never did find out what was messed up on there. I tried purging, refreshing the cache, and even removing the SDR directory but nothing helped. So I exited KOReader, mounted it on my computer, and copied all books and SDR directories off. I started KOReader back up again to verify it was empty, then I moved the books and SDR directories back on in the same places they were before and all works fine
I have no idea what was up but I can now get the TOC to work on all my books again so I'm happy
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