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I extracted the old mobi from your joint file and opened it in Kindle Previewer, I see no missing text or page breaks. The margins around the first chapter title are very large, which gives the illusion of a page break, but it is not an actual page break. That comes from the way calibre chooses to interpret percentage margins when converting to old style mobi (IIRC as fractions of the screen height of whatever device you have chosen in the output profile). And I see no missing text.
See attached screenshot
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