I've only had this with one book and the temporary fix I found (wanted to read the book) was to keep swapping the damn zoom levels... what was missing in one level would show in another. I assume something went wrong in the epub formatting but haven't had the time to check (or the inclination) as it was a one-off for me but sounds like there may be a problem here... try changing from epub to epub or lrf and back to epub using calibre and see if that helps.
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