Base Naruto parried an Amaterasu with a small Kyuubi cloak and Sasuke would have to be in range. Naruto would use Shadow Clones to assess the situation first. Once Sasuke's forced to use Amaterasu on the clones, Naruto will keep his distance, but it's also unrealistic to say Naruto can't weave a single hand seal each time Sasuke attempts Amaterasu, so a clone will always defend Naruto. Though, Naruto's already encountered Amaterasu against Itachi, while Sasuke has no knowledge of Rasenshuriken. Naruto also doesn't need his eyes, can feign being unable to sense without his eyes, and can surprise attack Sasuke with Frog Kata while he pretends he's using normal taijutsu against Sasuke. A single blow from Sage Mode beats Sasuke there. Sasuke also wouldn't immediately use Susanoo, as he's still not used to it, and has no reason not to try fighting Naruto up close first with their rivalry. The same goes for Amaterasu, really. If you'd noticed at the bridge, Sasuke had also no problem clashing his Chidori with Naruto's Rasengan, even if lying, waiting to restore his chakra, or waiting for allies to come could have been done to avoid that clash.
Naruto might just never go near Sasuke and Shadow Clones are the worst technique for a limited Mangekyou user to face. Actually, Shadow Clones themselves are something Sasuke would figure he shouldn't waste his Mangekyou on. Once the clones use Sage Mode, Sasuke immediately loses for underestimating them. Susanoo doesn't need to be destroyed immediately, either. Like Goju said, Naruto just needs to punch it away and make Sasuke get exhausted. Once Sasuke loses track of Naruto, he'll lose due to Naruto's superior sensory and guerrilla tactics. Mangekyou doesn't last forever and neither do the reserves of Sasuke. By the time Sasuke learned how to use Susanoo correctly, his vision was fading quite a bit. Danzo isn't a chakra monster and doesn't use Shadow Clones to wear down an enemy.
Naruto wouldn't get the small amount of Kyuubi chakra he can control suppressed, as he has no need to look in the eyes of Sasuke. Story-wise, the main character also wouldn't get oneshot by Amaterasu, and Sasuke wouldn't use that against his former friend first. Toads also wear down Sasuke even more and the sages would be harder to focus Amaterasu on. Their physical abilities with Sage Mode would also be underestimated. One of the toads could also reverse summon Naruto in a surprise attack against Sasuke. Oh, and the moment Sasuke loses track of Naruto, Frog Song also beats Sasuke.