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An upgraded Rev. 3.0 A3640 is another serious case of "Your Mileage Will Vary" but you should do the U200 cut and jumper mod as part of the 3.2 upgrade. This is needed to fix the STERM sampling bug.
Also, don't forget these A3640's are notorious for electrolytic cap problems.
If modified CLK90 timing didn't solve your SCSI problems then you probably don't have SCSI DMA transfer errors. You most likely have SCSI Target to Host transfer errors.
Check your WD SCSI chip Rev. (Stock A3000's shipped with Rev. 4 but most A3000 users have already upgraded to Rev. 8 or the AMD version).
Also, check your SCSI bus termination, SCSI cabling and set your SCSI Prefs to ASYNCH mode since some SCSI targets are buggy in SYNCH mode.
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