To illustrate this, we can extrapolate to the absurd. If a league was setup where passing TDs are worth 1000 points each, do you think Mahomes would be drafted earlier than usual or in the same spot.
I suppose but if that is the reality then it doesn't really accomplish anything and makes the league absurd.
In reality you still have a tier of QB's that make it basically equal to grab a QB5-12 with no real difference (at the time of the draft) because they are basically interchangeable and could fall in any of those slots without really scoring appreciably more than any of the others. In most leagues the PPG difference of QB1 to QB2 to QB3......QB12 is generally somewhere between 1-3 pts and good luck guessing the exact order.
Now in an extreme situation like you outlined you better be lucky and get the QB 1 because without that you will lose with that kind of disparity. However, can you be 100% certain of who that will be? I know I am not certain even if Mahomes is the most likely candidate.