If the same power supply drives everything fine with the TF330 then I can't see that being the problem as surely the 330 draws more current with its onboard CPU.
A CF card is for all intense purposes an IDE device so that should be the simplest solution. If you look closely at a CF to IDE adapter you'll see its essentially just a pass through from the IDE port to the CF card. Personally I try a shorter IDE cable and/or a different CF card.
If someone could come up with a way to mount a 2.5" IDE drive in the CD32 then I'd be all over that solution. In fact.... leave it with me.
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