I'll try to clarify:
I installed the OS with BIOS set to AHCI. Once I switched the bios to RAID mode on the sata ports, rather than AHCI mode, when I rebooted and tried to load windows I got an 0x7B blue screen, the standard BSOD that pops up when you have AHCI or IDE set incorrectly.
I had 2 other disks I wanted to run in RAID0, other than the OS disk which was just going to be a lonesome non raid drive. It wouldn't load the OS after installing in AHCI mode, then rebooting in RAID mode.
I do have an image of the AHCI install backed up, and will drop the image back to the drive when I return to AHCI mode.
For now, I did a quick fresh install from USB to get this working, and once I did the fresh install with the onboard sata already set to RAID, I'm booting fine into windows with one drive as the OS not in raid, and 2 other drives in RAID0.