Help! 694T Pro (MS6309) not working...

I have a MSI 694T Pro (otherwise known as a MS6309) which worked very well until a few days ago when I changed my cpu cooler. Now it POST's perfectly and I can enter and use the BIOS setup but it simply hangs when trying to boot (HDD, CD or Floppy). The D-Leds say that it's trying to boot.
I have a thesis to finish by the end of the month so I really need my computer.

I did remount the original cooler (with plenty of heat goop) and checked every cable. The hard drive, floppy and dvd are all detected properly, and the cpu temperature and cpu fan speeds give nice healthy readings in the bios...

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