The non-font issues are incorrect use (or no usage) of paragraph styles in Word.
Our epubs made by Calibre exactly match our docx files (made in LO Writer, only edited as odt and an extra Save As in docx).
Quote:
When I delete the book from Calibre library and readd using the updated Word file, shouldn't that pick up all the saved changes? I am wondering if somehow an old version is getting picked up.
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Change content in Edit Metadata.
delete the docx and epub
add the docx
click OK and convert to epub
delete the docx in Calibre via GUI or Edit Metadata (as it's a copy).
Any epub in a iOS or Android app needs to be removed and re-added. Calibre can only remove epubs in ereaders and apps where the file isn't copied internally in the app.