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You probably always should eject both disks (if you have an SD cars also) before removing the cable. I nearly never mount the disk with the system on under Linux since I mount all disks manually and I have never had a problem.
The Cybook seems to be very sensitive for file corruptions and it is probably a mistake in the overall design to put for the system important files on the disks that are mounted by the user. And if it is books that gets corrupted and causes the problem there is a serious problem with their code if a corrupt file causes the continious reboot of the cybook.
Since this is a problem that a lot of people seem to have they would do themselves a favour by putting instructions on how to recover on the web page. I am tempted to ask for the recovery procedure now and saying that since the are so slow in responding I need to have the procedure available if things go wrong. I cannot wait days for them to respond.
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