Adaptec's do seem to tolerate higher PCI clocks. I have an Adaptect 2940U2W and I use to run it at a PCI clock of 41 for months on end.
Talik: I have a similar problem with my system but slightly different. With my system, when I unplug it and leave it off for a while (AKA Lan party transport) then try and power it back on again, the system will either not post or will revert to a "safe" boot (1100Mhz in my case). Granted that I have a highly OC system so I think the problem here is that when I first power on my system, the MB does not have enough current available in order to get my chip to post correctly. IF I hold the "Insert" key down while I am trying to POST, my system retains my BIOS settings but boots into a "safe" speed. After that, I just hit the reset button and the machine will POST at full speed.
Try it with your system, with the SCSI card in and with it out. See if it makes a difference.
Worth a try. BTW what PSU are you using to power that array of yours?
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Athlon64 X2 4200+ @ 2.5Ghz (250FSB x 10)
OCZ VX 1GB 4000 @ 250FSB (6-2-2-2 timmings)
DFI LANParty nForce4 Ultra-D
SCSI Raid 5 x (3) Cheetah 15K HDDs
LSI Express 500 (128MB cache)
OCZ PowerStream 520W PSU
ATI X850XT PE (Stock)
DTEK WhiteWater + DTEK Custom Radiator
Eheim 1250
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