There is more text in this thread than the whole damn service manual for a 250r. Mongo. Your jetting on a stock carb with over bore cylinder and FMF system should be in they 48 pilot and 165-170 main range in my experience. Without seeing better pics of the jug I will make the assumption that your machinist did not chamfer your ports and your rings were clipping causing premature: wear. But run anything other than Amsoil. I have no confidence in that stuff. Regardless we need more pics of the jug and piston and how you ride and in what conditions.
Here is where my long useless list of stuff nobody cares about should go...
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"Team on the Teat"