Yes, I believe he will become the new S06P
1) Naruto's intent. The obvious similarity between S06P and Naruto is their will to protect people and insure peace, not just for his village, but for other villages. The Sage wanted the entire world to be at peace, shinobi, and people.
Naruto's personality allows him to change others' views and bring them away from the "darkness" as seen with Gaara in part 1 and kurama and nagato in part 2. We'll most likely see the same with obito.
2) The way Naruto looks in KCM and BM. If you look closely, when naruto is in his tailed beast mode , he looks very similar to the sage of six paths' silhouette. There is a magatama around both the sage's neck and naruto's. Both naruto and the sage have two spikes in their hair resembling horns at the same spot. Naruto also wears what looks like the same style cloak. They look almost exactly alike.
3) All the tailed beasts acknowledge Naruto and believe Naruto is the one who the S06P predicted would come and lead the tailed beasts to the right path.
4) The trust people have in Naruto: Naruto was entrusted to find world peace by Jiraiya, Minato, Konan and Nagato. This is part of the Naruto story. It plays too large a role in the story for it to be discarded. I can see Naruto becoming the "modern" sage and restoring peace to the war-torn world, just like he was entrusted with.
5) Naruto's mastered rasengan, sage mode , upgraded rasengan to rasen shuriken. All feats that his predecessors couldn't finish. Jiraiya couldn't fully master sage mode (he still looked a bit like a frog). Minato couldn't figure out how to upgrade rasengan