Thanks, yea Im thinking about cleaning the stepper motor out and see if that helps. I doubt it though, because I tried printing it again using just the single extruder in 1 color (the one with the clicking noise) and it came out pretty much fine, a couple lines but not bad. So it looks like its only a dual extrude problem.
Heres a side shot of the dual extrude and then a couple pics of the single color print.
