The 9MB at the begining is an indicator for primary partition or not. I ran into that problem too with the original Kobo firmware. Not sure which is needed, change it, either to primary (if it is not set) or remove the primary (if it is set) and try again.
btw, I ran Debian on my Mini, it worked. But I just checked it out when this thread was new and did not use it after a few days.
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