It sounds like the cover is not properly marked as the cover, and the EPUB merely has an image as the first page of the book. When opening it to read, it may look the same, but semantically it is not.
Either that, or as BookJunkieLI said, the book imported without a cover due to errors or something, in wich case you can manually set the cover through Edit Metadata (there is a bulk option in Bulk Edit Metadata).
Last edited by eschwartz; 12-18-2014 at 05:18 PM.
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