As Peter said, that error comes from the extended driver. It probably means the epub you were transferring has an error in its structure, or at least an unusual structure that the driver doesn't handle yet. Reporting the error to author is needed.
The other issues are with the base calibre and included Kobo driver. The SD card should be visible. Can the OS see the card? If not, then calibre will not see it. The OS also needs to be able to write to the card or calibre won't be able to either.
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