well... the reall battle is about to begin, i meen now pein will use his power, and will be a reall good battle .... remember that the bodies of pain are allready dead, so he can still use them ( not much, but he definitly can use them, like he did againtsjiraya and the previous fight after naruto came ), the only one that really cant fight is the human realm , that now seems to be only dast, asura realm also is quite destroyed.. but he maby can use some proyectile....the other 2 who was defeated maby can come back to life later.. at least the hungry ghost.....
Well thing now is.. pein s power remains, he just uses the other bodies to take naruto s charkra out.. he never used hells realm ( he can remake others bodies.. but i dont think he will), and the god realm is still on one piece, and remember he now can be more dangerous than with 6 realms ( the paper woman said that might be better if nagato only concentrates all of the chakra in god realm.. and thats what he is about to do, so he might be more dangerous now )...
I presume now the frogs will have to fight much, and at least one of them will die, and at least another will be defeated ( and unsumon ), naruto is with low chakra now ( to the ones that believe hes got all his chakra cause he was using nature one , well thats not true, remember he fuses his chakra with nature one to use sage state.. so he now must be at least with half chakra, and u can see that in naruto s last image of his face.. he is really tired ) so now he must try to restore sage mode, or be kyubi ( and i really think that becoming kyubi will be a bad move from kishi to make this battle a little bit better.. too see a beast fighting entire konoha and pein.. thats stupid, and to make naruto to dominate the kyubi chakra is something we know he is not able to do right now, and if kishi does that will be really stupid ) for that frogs will be really helpfull .. i presume if kyubi doesn not appear then naruto will develop a new technique wile he is fighting