I guess what's the cleanest way to run from the cab to the door, did you go through the rubber boot?
Yes, and I found taking the front light lenses out made access much easier. I have a fiberglass stick that is made for fishing wires that I use, but a coathanger wire would work just fine. I also use a little washing up liquid as lube.
The passenger side was a little trickier for me because you have to fish the wires around behind the washer bottle, but no big deal.
Also, make sure you secure the wires inside the door in a way that won't interfere with the window mechanism. Best to check everything is good before you button it back up.