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I think the preferences that relate to the author sort must be the same for both libraries - I don't know if any/all of them operate at the library level or if they're all global - but if library A is tweaked for 'comma' and library B for 'sort' maybe the matching would fail, or if the books were added to library A when the setting was 'invert' then...
The interlibrary feature of Find Duplicates works for me, however the way I use it 'guarantees' that the settings for Library B are always the same as Library A.
BR
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