Even though this theory is trully magnificent, if it happens the way you suggest then it would completely contradict the whole equality thing. Naruto would be way stronger that Sasuke.
@bold Thanks a lot! =D
While it is true that Naruto would be stronger than Sasuke if my theory does come true, it is also likely that it would only be for the time being. Every time Naruto gets stronger, Sasuke gets stronger as well, and vice versa. However, there is still one other dynamic that hasn't been encountered in the war yet: the fruit.
Sasuke is like Indra in terms of personality. What would happen if he got neglected by Hamura like Indra did by Hagoromo? He'd probably have the same reaction and go after the fruit to try to take over. This gives legitimacy to Hagoromo's fear of the fruit, as well as possibly set the grounds for the final fight.
If that weren't to happen, then there is the scenario where Hamura gives Sasuke a little power, enough to possibly give him a second Samasara eye, which would level out the playing feild.