Update
Looks like the Yamaha is getting pushed into the weeds. He rode it with me on Saturday and Sunday a little bit, just cruising roads and easy riding. Everything fine. Then Sunday night, he went for a ride to a friends house about 5 miles away. Keep in mind, he literally drives like a grandpa - as if there's a wood block under the gas pedal. After going a few miles down the road, the temp light came on. He sat there with the engine off and the fan running for a half hour before the light went out. Started it and drove 100 yards and the light came back on. I rode over to where he was and towed him back to the garage. We tried burping it, but it would immediately overheat and the coolant in the radiator is cold. Water pump is working. Removed thermostat. It had popped itself too far open, (i guess they do that when they get too hot). Cut the middle out of the thermostat so it's wide open. Reinstalled it. Opened bleeders till just coolant comes out. topped off and started it while trying to add coolant as needed. After about a minute of run time from cold, the temp light comes on again and radiator is still cold.
I think it may have blown the head gasket from getting hot. It seems air locked but coolant is circulating. Seems like it is either getting combustion causing an air pocket in the head due to bad head gasket or crack somewhere. Either way, at this point it's beyond us. We cant do anything with it and there's no sense in us starting over again throwing money and time at this thing. I don't know what to do.
So the moral of the story is DON'T OVERHEAT YOUR MACHINES.