It does seem that a common factor is often web-magazine conversions. I suspect it's something along the lines of that type of document exceeding some buffer (e.g. no of links, size allowed for TOC text, etc) in the reader that the developers, thinking of normal books, didn't allow for.
You may get different results if you encode to EPUB rather than LRF, but it's also possible that it might crash on LRF, in which case try EPUB if you've not already done so! :-)
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