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Hi Starson17,
You can get Calibre to generate HTML as a by-product of a PDF to EPUB conversion by switching on the Debug option
i.e. in [Convert] - [Debug] specify a directory on your local disk to receive the Debug output.
At the end of the conversion ignore the EPUB and go to your specified Debug directory. An HTML version of your PDF source will be in each of the 4 subdirectories, Input, Parsed, Processed, Structure. (I often use Input but sometimes Parsed has been more suitable.)
You can then pick the one you like best for further manual editing in your editor-of-choice before reimporting the tidyed-up HTML into Calibre for a proper conversion to EPUB.
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