Well if were going to do this in installments, perhaps we should think of points to cut the franchise, so to speak
I mentioned earlier that movie one is all young link, more and more I think this is a bad idea. Maybe cutting it after Dodongo's cavern and starting the third movie with JabuJabu's belly (think cold opening Bond-style) might be better, that way we set up the transformation to adult link, the "confrontation" with Phantom Ganon and the whole time aspect of the game.
Of course I might be overthinking it, but from a movie standpoint it gives us a hook and plotline to follow to its conclusion, as well as metaphorically and visually set up the transition from young to adult more smoothly by giving us fair climaxes to work with.