ProRes converted from T2i won't play back right

I am trying to work with footage from a Canon T2i. Using Log & Transfer and the Canon plug-in (with a hack to make it work for the T2i), I convert to ProRes 422 (not HQ). I'm using an OWC FW800 RAID (this one: http://eshop.macsales.com/shop/firewire/1394/USB/EliteAL/PerformanceRAID) and I'm working on a Macbook Pro (2.33 GHz).
When I play back the footage after being transcoded, either in FCP or Quicktime, it's very jerky and slips out of sync. I just bought the new hard drive, after having issues with FW 400 drives, so I thought this would fix it, but it's not. It seems like something somewhere along the line can't keep up.
Is the computer not fast enough? The drive? I'm logging and transferring directly from my SDHC card reader; should I first transfer the files to the hard drive?
Please help - getting very frustrated! Thanks!

I have that unit with two 1 TB Seagates in it and haven't had issues.
However, I used it as a BU drive configured as JBOD.
I wonder if the RAID controller is causing issues.
Note as well that using a single FW bus to create a RAID is an issue.
Any chance you can test it configured as JBOD with two drives?

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