Ok, thanks for all the great help. I bled the coolant as Dave suggested, I don't think there was hardly any air in there as coolant came out immediately. I checked the carb boot, no cracks, it was a tight fit around the carb. I checked the coolant level, all the way to the top. The overflow tank is at the full level.
I checked the spark plug, it was a little loose, nothing major though.
I checked all the coolant lines, all connections seem tight, no cracks or bad hoses.
So, I think what has happened is as Canadian Dave has suggested. I was getting so low on fuel, and not having the fuel throttle to the RES mark, it was just sucking air. Next time I ride I will let you all know how it went with a full tank of gas.
Thank you again.