Ok First of all the way i see it is that how is naruto gonna be in sage mode, to begin with. As far as we know in the manga naruto hasnt learn anyway of absorbing natural energy yet. so if the fight starts off with naruto not in sage mode, sauske could win, by preventing naruto from absorbing the natural energy. because we yet to see a way for to absorb the natural energy. On the other hand sasuke MS Sharingan can be activate rather faster. So with out sage mode i dont think naruto can hold a fight against sasuke. with that being said, if naruto manages to find a way to absorb the natural element while moving or something (im pretty sure he will find a way, he always does) than the fight will get more complicated for sasuke. Its true that in sage mode naruto has a bigger advantage over sasuke.
I dont think its all about how much more naruto knows or how much sasuke knows, its more about how they use them in the fight and how well they prefected there move. because if u notice almost all the characters in the manga/anime have only a few moves but are strong because of how the prefected there move and how they used them. Another thing is the strongest ninja doesnt always win. and thats been proven throughout the manga/anime.
Do remember that back when naruto, sakura, sai, capt. yamato met sasuke in the hidden base, and how sauske entered naruto's mind to see the nine tails. the nine tails even stated that the sharingan had a more powerful and sinister chakra than its own. so i believe that sharingan can out power the nine tails chakra (just an opinion)
In the end naruto has to much stuff that he knows, like all the stuff hes learning is high rank stuff, the first move he prefect was in the forbidden scroll, than he learn the summoning technique, and so on... naruto determintation and never giving up spirit usually gives him the advantage in his fights, even though he may be getting his ass whooped, he still comes out of it on top.
Sasuke MS sharingan i believe still has room to be improved, there are still things we dont know about it and what it is capable of doing. because it was know that there was no way to stop Amaterasu, but sasuke discovered a way to stop it with his MS sharingan. so i believe theres more to the MS sharingan.
another thing i want to know is if the time/teleport thingy (not sure what its really call, but he did it when he was fighting the leaf ninja's) that uchiha madara does is part of the MS sharingan ability or if its actually another move. i know kakashi stated something about it, about how the 4th knew it or something. just throwing it out there because if it an ability of the MS sharingan than prehaps sasuke could learn it too. and therefore making MS sharingan a contender against naruto's sage mode. because then he could just dodge everything.
but all in all it will be a great battle.
and my vote as goes to naruto sage mode as of now, it could be change in the future. because of all the information that we have, sage mode seems the better out of the two right now. =)