Verify +5v at the motherboard connector,it should be 4.92v or better
check and make sure its seated properly. are the plastic standoffs the correct length?
you might try and clean the accelerator/motherboard socket with contact cleaner.
pull all cards but the cyberstorm and test it if you haven't already.
Maybe change the oscillator to slow it down and see if its stable? what speed is it now?
are you using the scsi?
revert the amiga back to 3.1 roms and test(although i don't suspect this is anything to do with the problem).