Sometimes libraries/accounts with some specific characteristics quit being able to sync. It might be your case, I don't think it's related to a bug with this firmware version since not a lot of people have reported on this.
This happens to me every few months. I've lots shelves/collections (45) with two of them holding most of my books (around 1400), most of my books are sideloaded, but I have around 350 that are stored bought and synced.
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