Originally was having some vibrations under acceleration at 60mph, got rid of spacers went a way a bit. I HAD the CL-S axles on my car, when the vibrations didn't go away I switched the axles the vibrations are completely gone.
So I updated the previous link, and will update my original post after the swap and everything gets worked out. But this is what I came up with for wiring the ecu, still need to figure out what to do about the clutch switch ecu pin 17 on the CL but besides that I think I'm going to start wiring tomorrow.
J32A2 6MT ECU WIRING - 00 Accord EX V6