I have an Asus P9X79 PRO motherboard. It supports dual PCIe 3 x16 mode. I need to install one GPU - an EVGA GTX 670 FTW. The mobo manual says it's recomended to use slot 1 when installing a single GPU. My problem is that I installed a large CPU cooler (the Noctua NH-D14) and that slot is now unusable.
Could I use the other PCIe slot that supports x16 (which is otherwise recomended to be used for SLI configurations)? Will I take any performance hits or will it just not work at all if slot 1 is left unused?
My plan B is to take out the CPU cooler and rotate it 90 degrees. That would solve the problem but it's a bit inconvenient since I have to clean it/the CPU and reaply the thermal paste.