Does calibre actually recognize the E60? As the SNE-60?
How does the E60 know that something is in a library? Is it built into the file system, or does it have a database of some kind?
It is probably a database if there is some user interface on the E60 for moving books from one library to another. This will certainly be true if the book does not actually change locations in the file system when you change the library. In this case, there is nothing you can do in calibre short of writing special code to make libraries happen.
BTW: the 'metadata.calibre' file is used by calibre, not by the devices.
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