Ok, this problem is one I really did not explain well. I think I am going to have to go back to the beginning and get it resolved from there.
I bought the parts for this computer almost 2 years ago. Since about the first week, every once in a while when I restarted the computer would just power on for a second then power off for like 4 seconds then power on for a second and off for seconds over and over until I pulled the plug from the PSU. It would keep doing that until I pulled the CMOS battery and let it set for a bit.
Then I would have to go into the BIOS and renable everything and set the time and all of that. Well, now it does it EVERY single time I reboot. It is a real pain in the a$$. Getting anything updated is a real pain in the a$$.
I have just flashed my BIOS to the newest version from the MSI website. After reading up on that I thought that was going to be the FIX! But alas it was not. I am thinking I might just have a faulty motherboard. Which sucks. If there is any help on this that would be awesome!
I will double check the intel and chipset drivers as well.