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Originally Posted by JSWolf
And from there you will get a linked ToC at the back of the Mobi and no other ToC if the ePub has no internal ToC but only a ToC in the NCX.
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You're making absolutely no sense now.
There's an inline TOC (xhtml) that's completely optional in either epub or mobi. It's part of the ebook's text. And there's an internal/structural TOC (NCX for ePub and OEBPS) that you will never see by turning pages. It's part of the ebook's structure.
Calibre is the only conversion software (I know of) that will turn the internal (NCX) TOC of an epub into an inline (XHTML) TOC and add it to the back of the mobi—and you can easily tell it
not to do that. So it makes no sense to blame an ebook having two TOC's on any particular conversion software. It's simply a choice or an oversight on the part of the creator.