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What you see when you are doing the split is the chapter headings... So it's not picking files per se, rather a listing of HREFs (appears to be the full name of the files) and then their entries in the Table of Contents.
So all I did was to highlight the entries from the first portion of each book, through to the final TOC entry for that book. Images and CSS file names don'r appear in this list; they seem to get included based on what is needed.
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