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The uuid of the opf is used as the checkpoint repo identifier and one is created if none exists but if you did not save after the checkpoint, the next time you load that epub, yet another new uuid will be created and no match will be found.
So load your epub, do not allow mend. Do the checkpoint. That will add a uuid dc identifier automatically. Save that file to a new name (to prevent confusion). Now you can either run Mend now and thendo the compare against the checkpoint or load the newly saved file and then run mend, and compare this to its checkpoint.
This is only as issue for epubs that do not have any uuid dc:identifier to begin with.
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