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Thanks for trying this out.
I can replicate the filtering problem, but it isn't actually the filtering but the file list--for some reason, some books are "found" more than once in the search. This is "supposed" to happen, according to my very limited understanding.
I'm trying to figure out why is does.
As to missing your other library, a couple of questions may help:
1. how may books are in each library?
2. Can you open the folder for one of the books in the library that was missed and check that that folder does in fact contain a file whose name is "metadata.opf" (I can't imaging why it wouldn't but that is what the program searches for).
3. Finally, what OS are you on and what Browser? (Neither of these should matter, but it might be a place to start)
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