This fight isn't really fair. You can't take away Sasuke's kekkei genkei, that's like taking away Naruto's large chakra reserves (which would then have made his rasenshuriken and sage mode training impossible, he also wouldn't be able to use multi shadow clone jutsu).
It's ridiculous to take his Sharingan away because he's spent the last 3-4 years adapting his training to work with it and improve on it. If he didn't have his Sharingan, he then would have spent these last 3-4 years working on something else worthwhile.
Anyway Sasuke was always the better student/ninja anyway - he was top of his class (without the sharingan).
He is a genius, Sharingan or not.
Genius = kakashi, orochimaru, itachi...
Sasuke would still have learned the chidori in an impressive time because of his greater aptitude
Sasuke would be > Naruto
Orochimaru doesn't have Kekkei Genkei and yet he still kicks ass, Kakashi would still be kick ass even without his sharingan. Why? Because he became a jounin at like 13 and he's the son of the White Fang
Uchiha > all, they were introduced as the best, they are the best