I had the same problems with a few PDFs I converted with Mobipocket Creator. My Cybook was doing something when I tried to open the resulting MobiPocket files (the green LED was on) but nothing happened, even when waiting 10, 15 minutes.
A reset was all I could do.
What did help was disabling the 'add pictures as JPEG' (or something like that; I'm not at my PC right now) when creating the Mobi file. It would open them fine as soon as I did that.
Note that Mobi Reader 6.2 beta, uBook and FBReader had no problems with opening either file.
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