Yes, that would be easiest, as the unzipped filename is update_kernel in both cases.
Prepare one card with epub books and the epub version and another with mobi books and the mobi version.
On your computer, you can store the zipped files in the same folder, cybook_fw_1_6_1197 is the mobi version, cybook_fw_2_1_1198 the epub version.
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