You're going to find that a good portion (maybe 70% or so) of the wiring goes REALLY fast. That's because you'll have a connector and you look at it and there are 6 slots but only five are taken up...with the missing one in the bottom center. Then you look at the wires coming from the battery box and there's only one that matches up to that. Snap, click. That one's done.
Even in the headlight where all the rat's nest goes, you'll find the same kind of deal. It's the loose wires that you have to take the time with.
Here's what worked for us: take the time to print out 2 copies of your wiring diagram...as big as you can get them. On one of them, every time you connect something, take a highlighter and highlight those wires on one of the diagrams. That way you will know what's left to be done when you get deep into the process.
Also, if you'll look at the diagram, you will notice "OK...there are 4 wires coming in here...looks like they come from...ok, they come from the ignition switch and they should be color a, b, c, and d." So you go find that bundle coming from the ignition switch and trace the bundle into the headlight...then you locate those 4 wires you're looking for. Then you find the other four that they should match up to coming out of the bundle...connect them...mark them with the highlighter on the diagram and voila...four more wires taken care of. It really is as simple as matching color to color when you break it down like that.
One last thing. We didn't do it but I think it would have been easier had we done so. We went ahead and poked all the wiring bundles (from the rear brake, from the clutch, from the ignition, etc) into the hole to get them all into the wiring harness before we started to connect them. I think it might have been easier had we left them outside the headlight and just originally pushed the wiring harness bundle through. Then, do one "system" or bundle at a time. In other words, poke the bundle through from the front brake. Find those on your diagram...match up those wires and mark them off your sheet. Once you're finished with one set of wires, poke the next one through and continue the process for that group. Otherwise, you end up with a whole bunch of loose wires and makes it a bit more difficult to trace the origins.