I wanted N to be fleshed out more in general, I found his "morals" to be rushed decisions after a couple of loosely labelled speeches from team plasma.
N had no real ability to think for himself, so he really couldn't be fleshed out, having been sheltered to the point where he was still playing with blocks and toy trains like a preschooler. His life, up until the end of the game, was completely planned by his father to be perfect for instilling hatred for humanity, like a dog tha'ts been chained to a pole and hit most of its life. N still thinks and sees the world as a child (or, possibly, a beaten dog), in black and white, and he wanted to make everything that way. Or, at least, Ghetsis wanted him to believe that he was going to. Hell, he was probably going to kill him once he had the dragon he needed to conquer the world.
When you defeat him, and Ghetsis shows him the harsh reality of his actual plans, N decides he wants to see what the world is really like, and flies off on Reshiram or Zekrom.
Basically, the story ends with N discovering he needs to grow up. I think the third game will (quite obviously) flesh out the aftergame, and make N appear after the Sages have been found, telling you the things he has seen after he flew off on Resh/Zek to see the world Ghetsis hid him from.
Then Ghetsis pops up, having uberhaxxed his Pokemon to levels above those of Red from HGSS, and plows you over while N watches, having released all his Pokemon except for the legendary.
Noob out.