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Calibre makes no attempt to support specific reader apps because there lies perdition. There are so many of them, they change so quickly, and what they want and need is often so very mysterious that such an attempt would be close to futile.
FWIW: I tried FBReader and Cool Reader, but ended up using Moon+ (pro because I wanted to support the developer and wanted syncing). I use Calibre Companion to manage my library (full disclosure: I am one of CC's developers). For me the reader app is simply that, a reader app. I use none of Moon+'s library organization features, because all of that is done in CC.
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