Firstly, I have been using 3.2.0 for a while now, and haven't seen a problem like this. I don't do much in-book searching, but did use it on the weekend. I do use a lot of annotations.
But, are you sideloading as epubs or kepubs? is this happening for books that were already on the device when the firmware was updated or books sent since? Have you edited any of these books and resent them to the device?
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