I've been able to force an end result that I like, using Scrivener to create an epub, and then editing that with Sigil. after I get an epub that validates, I can use kindlegen to convert to mobi if I need to. It's extra work, but Scrivener for PC does create such easy epubs that it's worth it to me. I do find, however, that I do my writing in Word, and then import that to Scrivener.
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