After chasing continuity and plugging and playing for days, and also with a lot of help from HondaMan, heres the photo installation to get the $75 aftermarket wire harness to actually work with your bike:
Step one: CHECK the harness! Make sure everything is solid and secure before the installation
Step two: CHECK all of your block connectors and clean as necessary
Step two: Disconnect your battery and remove the old harness but do not throw it away. It can come in handy when trying to see what's wrong if you have issues and all those male and female bullet connectors may be required.
Step three: Lay out the new harness and wrap it with a 1/2 inch loom for addd protection (about $5 at any local hardware store).
Step four: Install the new harness but don't secure it down yet. My preference was to start at the back of the bike and work my way forward. The harness should run on the inside of the frame (between the battery and the frame) and all of the connections should reach their respective parts. It should also be very neat at this point.
Step five: Run the harness up the frame to the front of the bike. There are may ways to do this but if you go by the Honda shop manual, you should be running it on the underside of the middle frame rail and above the ignition coils.
From there it should go out the left hand side, above the gas tank mount (theres a little indent) and though the forks.
*Note: you may have to remove the ignition coils briefly to run the harness.
Step six: Go inside, get a beer and the ole' soldering iron out or butt splices and make some 3-4inch long male-to-male jumper cables. I couldn't find the right size male connectors locally, so I cut some old cables, soldered them up and gave them a fancy electrical tape wrap.