Yeah currently running prime95 on it, full cores are leaving me temps of about 55-60 which in a shuttle is ok, idles at about 36-38.
He says it has to do with the extra FSB being pumped into it, that's making the southbridge freak out and that's why the USB's start playing up, On his last board the southbridge popped so he speaks from experience. He also told me to have a look at my voltage rails but they are looking the same as when it was at stock.
It was a good find by him considering I only sent one text explaining my issue lol. Like you say not many people really play with the southbridge they concentrate on the northbridge so hopefully my experience with come in handy for someone else someday.