I lit the pilot and the burner kicked on nicely, when I went to replace the safety/dust pilot access cover, I bumped the pilot tube and thermocouple ever so slightly and the gas valve clicke off, click. Does this sound like the thermocouple?
It sounds like the thermocouple but what is the question? You could have knocked it out of the flame but that usually takes a second or 2 , you could have damaged it or loosened it from the gas valve. Relight the pilot and make sure the thermocouple is in the flame. If it is let it run for a few minutes just to make sure things are good. When lighting gas fired pilot based equipment I normally turn the temp up so it needs to run prior to putting it on run. At that point when putting on run wait 30 seconds if it is still running you are good to go. If the gas shuts off it is probably a bad thercoumple. So make sure it is in the flame and wait a little while after changing from pilot to run. It just may be a timing issue and you thought you did something but it just took the TC that long to change modes and turn off the valve.