I would definitely be interested to see if the newer firmware fixes the problem 
for you.  I have a very similar setup to yours, and finally forcing the 
firmware flash to 1.26.00 of my on-board LSI 1068E on a SuperMicro H8DI3+ 
running snv_131 seemed to address the issue.  I'm still waiting to see if 
that's entirely the case, but so far so good (even with a LOT of disk activity 
to clean up the very messy zpool which had resulted from all of the disk 
timeouts/errors previously).
-- 
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