First PCI-E is better for the future, so I'd go K8N4-E Deluxe.
Anyway, the only "issue" that I had was that I had to disable PEG Link Mode in BIOS because it overclocks your video card without asking you. I read an article that says the Connect3D video card has a flimsy heatsink so I'd get "failed VGA test on boot". I haven't had that since I changed that BIOS setting.