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Basically, no.
That story has some 14 chapters on the site, and the author has chosen to name them XXX Ch. 001-010, etc and embedded chapter headings of their own in the text of the real chapters.
FFF uses the site's chapter structure. You'll have to use some other tool (like Calibre's Edit book) if you want to change the book structure to match the author's implicit structure.
But be aware that doing so will almost certainly break FFF's ability to update the epub.
FYI, I've removed the NSFW link from your post. MR prefers not to have them.
EDIT: Actually, I may have writen a bit quicker than I read. Turning off the clean_chapter_titles setting may be sufficient for what you want.
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