The file extension not being recnogized is an easy fix. I forgot to add it to the list. The metadata reader just reads the OPF from the archive. It's just a standard OPF just like if you do save to disk. Now that you mention the cover Kovid point out that thats not supported when he committed the changes. Looks like I forgot to go back and add cover support.
email me the file and I'll see what's going on.
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