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Yes. The list of files in the dialog box is the list of files Sigil _thinks_ is not in the manifest. That may or may not actually be the case. Does the list appear to be every file in the epub? And does this happen with every epub you open or just some?
Kevin's been looking into a similar issue reported by a Mac user, so I'll let him take over. He understands the specifics better than I do.
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