An issue, hopefully, unrelated to my other problems...
I thought it might come in handy to someone to know this ahead of time.
Using an MSI N560GTX-Ti Twin Frozr II w/2GB DDR5 on my Gigabyte GA-X79-UD7 and the heatsink on the video card hits the chipset heatsink on the motherboard. It's a very tight fit if you get the card latched into the PCI slot.

This photo shows the interfering heatsink on the vid card:



And this one shows it actually hitting the motherboard's heatsink: