Graynomad:
I can post the schematics it you think that will help, I think I did the same as you but you may spot something.
Rob
Yes, please :p.. didn't find a lot of those online for the Sam uC, nothing barebone atleast..
Edit: I'm designing a board that will attach to the SAM3X8E breakout. I will post a schematic and board files when I'm finished and I would be more than happy if the design experts here give me a lot of criticism =P.