no it doesn’t , there is a separate harness that will allow you to keep the stock lights. You do lose the flashers though for a pit limiter but I’m sure some could figure a way around that. Not sure about the speedo but I didn’t see anything in the manual saying it disabled it.Doesn’t the kit ecu/harness remove headlight, taillight and speedometer? I can’t afford a track-only R1. That’s why I’m marooned in a desert island till a reflash or PC-V becomes available. Let us know how yours turns out.
you can download the kit manual from Yamaha Europe to give you an idea