rough running after LT/TD install
First of all, get all you block off plates put on, and you sensors hooked up. If it's still running bad...
Did you remove the plugs for the header install? If so, did you possibly drop any of them? If you didn't remove them, or if you dropped one or possibly could have damaged them in any way, REPLACE THEM. I pulled my plugs to check them twice... they looked perfect, but it turned out my miss was coming from a bad plug anyways. I had a hell of a time figuring that out... swapped out the wires, coils, pulled the alve covers, spent hours with a scanner, etc. And all of that because I thought I could get away with only removing two plugs on each side when installing the headers

Hope that helps. The primary O2s are VERY important to your PCM's ability to meter fuel, so get that fixed ASAP.

