I've been following your project and learning a lot from your experience. It's great that you've taken the extra time to document all of this. Seeing the bike stripped down is really helpful. If you don't mind, I've got a couple questions:
--The negative side of the battery is connected to the engine though one lug, is that correct?
--In the wiring harness, does the motronic have a direct wiring connection to the battery via its own wiring?
--In the photo of the exhaust below, what is the red color on the cat/muffler? Also, I see the blueing in the lower left corner of the cat and at the O2 sensor neck I have that on my '04RT. I guess that's normal, but wonder if the heat is high there due to mis-fired fuel igniting.
--What type of O2 sensor do you plan to mount?