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Just in case ...
If you want to see the fixes that Sigil makes, turn off mend on open in Sigil prefs. Open your problem epub. Do not respond to any prompts to autofix. Hit the Checkpoint icon to make a Checkpoint of it. Exit out of Sigil. Re-enable mend on open, reopen the problem epub, allow Sigil to autofix things. The use Sigil's checkpoint diff tool to see all changes since the checkpoint.
That said, calibre is really robust and and can handle a lot of bad markup, so I doubt anything that Sigil auto fixes would be a challenge for calibre at all.
You might want to try running epubcheck instead or calibre's auto mend. Or even a calibre epub to epub conversion.
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