I see now, but the cards showed up in all but that one slot. Its when I went to test if everything was working with that I had problems.
aticonfig --lsa
Shows cards in all slots but the #2
But when I test with
sudo aticonfig --adapter=all --odgt
and
./cgminer -n
is when things go wrong
I'm going to try some bios setting first, and then maybe the pin shorting.