If it's flooding while running, pull the plungers out and inspect the bottom of them. The bottoms are rubber and made to seal. I have seen these split and leak.
If it's flooding when it's not running, the non-stock fuel pump could be the problem. The stockers have an anti siphon valve built in that prevents fuel from siphoning from the tank. Also check the impulse line that runs from the fuel pump to the crank case, if there is fuel in it, the pump might be bad...