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Why are you converting from HTML > KF8 > ePub? That makes no sense. What you could do is use the Calibre editor with the HTML. Split the HTML as needed, make your own CSS. Get rid of any internal code that should be in the CSS and rename as you feel appropriate.
Orif you feel converting is what you want to do then go HTML > ePub and then edit the ePub. You can rename the files and you can clean up the code. Once you get the ePub as you want, then you can convert to KF8 using the ePub as the source.
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