I am at my end.... My brother and I have been wrenching on this 71 350 twin for about a month now. One engine had a bad tranny, another a bad crank.... so we finally got it all together, and when we start it up it runs beautiful... but when it heats up, conk!! dead in it's tracks. Cool her down and purrs like a kitten, for 5 mins or so.. than clunk!! We have checked carbs for blockage, petcock for flow, adjusted and readjusted valves, timing, and cam chain tension.. what is the deal??? When it locks, it locks can't even kick over....
Had a similar problem. Bike would run for about 5 minutes then just stop. I had installed a new gasket seal on the gas cap. Did it wrong and the tank was not able to get air. This resulted in a vacume in the tank not letting gas flow. I would open and close the fuel cap and the bike would start right up. Drove me nuts for about a week till I figured it out. Good Luck
Try checking the breather hose located at the top of your engine plate. The breather hose connects to the top plate of your engine and is usually tucked between the lower back of the engine and the engine mounting brackets. You may have pinched the hose during installation of the engine causing pressure to build-up in the engine while the engine is running. The build-up of high engine pressure will likely cause your engine to stall or stop running due to the pressue build-up by the possible pinched breather tube. The engine pressure has to have a way to be released. As a test disconnect the breather tube at the top of your engine plate and start the engine feel for air pressure at the breather hole and check the hose to see if pinched or if it is restricting air flow. If you are not getting any air flow from the breather hole after disconnecting the breather hose make sure you have installed the top plate correctly. Hope this helps.