i ended up finding cylinders marked on the injector wires and they were correct

we didn't tear into the timing at all. Only thing we did was adjust the valves after putting the heads on

I took it to an auto mechanic. He took 1 look at it and swore the plug wires were totally farked up. He switched 2 and it all of the sudden it would idle. He said 2 more are still crossed. Doesn't make sense to me, because we traced those wires out at least 5x. But if he can make it run smoothly, more power to him

 

Did you remove the coil packs from the ignition module? If so you could have reinstalled them in the wrong order. The coil packs are all the same except for the cylinder numbers printed on them.
Lowest on the ignition module, down toward the water pump is the 1/4 coil, then comes the 6/3 coil, and finally, highest, is the 2/5 coil pack. So the plug wire order from bottom to top should be 1, 4, 6, 3, 2, 5.

 

i don't have the car or the manual in front of me, but im positive we had it right, because that was what we thought was wrong, we went over it over over and over and over. Then this other guy starts switching them around and it runs better. Maybe we were looking at the wrong motor in the book, but i really don't think so

 

with the way the coils are set up its real easy to get the plug wires crossed on a v6, good you got it figured out.