Sounds like you have a blocked idle jet in the carby causing it to not idle properly. Try unscrewing the idle cut solenoid and giving it a quick blow through with compressed air. You could also try winding out the idle mixture screw a bit to see if it loosens up whatever is in there. Carbies usually get a fair buildup of scale in them from sitting for a long while which is hard to remove with a quick cleanup. Now that it has fuel in it again the scale and crap will start to loosen up and can block small jets like your idle jet.
The water passages in the head could be blocked with rust from sitting or it could be the impellor on the waterpump has rusted away from sitting causing it to get hot quick
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