Okay Fritzpeed, thanks..a couple of pictures are worth a thousand words. You have your drives set up in the hardware raid position. When you pulled the jumper, it proved that your hardware raid drives are indeed setup in the Nvidia Raid bios. In your "On Chip ATA Device" screen, change the Raid to "Ide". You dont need raid enabled for the hardware raid.
Ahh..before you change it to "Ide", use the F10 prompt to get into the Nvidia Raid bios...if you see any drives in the Nvidia raid screen "array discs"..move them to the left side to make them "available discs", then escape out of the raid bios. If I'm correct..when you go into the Nvidia Raid bios..you will see your drives represented as a single 500gb drive labeled Scsi drive or something. You should have no drives in the Nvidia raid unless you want to use it for additional raid drives, or unless you want to use the Nvidia software raid as a bootable drive.
Here's MSI's link explaining hardware raid: http://global.msi.com.tw/index.php?func=prodfaqanswer&faq_no=1859&prod_no=1168&
Unfortunately, hardware raid is so simple, most people (myself included) manage to mess it up by figuring that you must load some drivers and it must have something to do with the Nvidia Raid.
Now, what I dont know, is if you set up your hardware array in the Nvidia Raid Bios, and then loaded your OS, you may get an error message when booting? Just make sure you select the proper boot device "Ext Sata device 8M" or something similar in your bios when you first reboot. If you have trouble booting, you can always put the hardware raid back into the Nvidia raid bios, but then you will continue to suffer with the conflict caused by putting a hardware raid array into a software raid program. Well, upwards and onwards. Good luck,