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I'm also wondering if there isn't some crap css in your files since you're using Word .docx files. Whenever I open an epub that was created in Word I'm always rolling my eyes at all of the crud that is in them.
A possibly interesting/informative exercise would be to remove the .css files that you get after calibre converts them and see how things come out on the ereader. Also then use calibre's thing to remove all unused css and classes from the html. At that point you can start working forward and add enough css to make it look reasonable.
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