Video playing back choppy even in Source window

I've been working on a project for a while and wanted to back it up to a hard drive. We have an internal hard drive bay so I shut the computer down, put in a 500GB hard drive, backed up the project, shut the computer down and removed the hard drive.
Now, all of the sudden, my footage is playing back choppy. I probably shouldn't say it's playing back choppy because what happens is I'll take a raw clip, load it into the Source window start it playing and it plays fine for about 8 seconds, then it starts stuttering, the audio drops out completely and then it completely freezes up. It doesn't seem to matter what clip I'm using and all of these clips used to play back fine.
We are using a Matrox RT.X2 card and the footage is on four 500GB hard drives that are in a RAID 5 array, so I have a total of 1.5TB of space. Would defraging the drives make a difference?
I'm not sure why this has just started when nothing was added or taken away from the project.
The computer's specs are as follows:
Win XP Pro
2.66Ghz Core2 Quad
4GB Ram
GeForce 7600GT
Matrox RT.X2 Card
300GB SATA HD for Operating System
4x 500GB SATA HDs in RAID 5 array for Footage

According to the Intel Matrix Storage Console (which is the software that monitors and controls the RAID array on this motherboard, an Intel D975XBX2), the raid is working properly and is not being rebuilt.
To check and make sure the software was working properly I shut down the computer, unplugged one of the hard drives in the array and restarted the computer. The monitoring software reported that the array was missing a hard drive.
I have seen before when the array was being rebuilt. It will state this in the monitoring software. But the software is reporting all is well.
So I backed up everything and deleted the RAID array. I recreated the RAID array and was still getting the same problem. To test every time, I have a 900MB file that only takes about 20 seconds to transfer between two single SATA hard drives in the same computer. When I tried copying this to the RAID array it said it was going to take about 30-40 minutes!
I removed my boot drive and put in a spare that we had, formatted it and installed Windows XP, hoping that the problem was in the operating system. After installing the mobo drivers I tried copying the 900MB file and again it was going to take 30-40 minutes.
I deleted the RAID array and just made each of the 4 500GB hard drives a separate drive. I formatted each of them and tried copying the 900MB file to each. Each one of them only took about 20 seconds on their own to copy the file.
SO, I'm assuming that the problem is the RAID controller on the motherboard. The motherboard has an Intel ICH7R/DH SATA RAID controller. I purchased a Rosewill RC-209-EX PCI controller from Newegg.com and I'm really hoping this will fix my problems. I'm having it overnighted (which costs more than the controller itself) so I'll put it in tomorrow.
If anyone has any other suggestions, please let me know.

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