So I reflashed the bios by removing the battery powering on and then turning off the pc.
Took all three sticks out. Plugged in one into slot 1, bios read 2gb, slot three, bios read 2gb, slot 5, didn't start.
Kept the good stick in the 5th slot and put the other two in slots 1 and 3, and bios reads 4gb.
I think my mobo is bad actually.
It is the gigabyte board is this: GIGABYTE GA-X58A-UD3R LGA 1366 Intel X58.
I'm tearing down the pc and going to microcenter as we speak. If you can think of anything else let me know, or if there is a fix specific to this motherboard because some programs read that I have memory in slot 5. I'm still messed up by the pc not being all bad or all good.