Poe souls in Zelda: Twilight Princess

The main difference is that the whole game is flipped, horizontally. In the Game Cube version, Link is left handed (as he was in all previous games). In the Wii version, he is right handed. In order to avoid re-doing all of the graphics in the game, they just flipped the entire game - Lake Hylia is in the southeast corner instead of the southwest corner, if there is a path to the left in the Game Cube version, it is to the right on the Wii, etc.

I recall that Nintendo stated that this had something to do with players using the Wiimote in their right hand, and the interaction with the game was odd if Link was left handed, but I'm not positive on that.

I'm gonna go out on a limb here and say... you... don't? I can't remember clearly, but I'm fairly certain the best you can do is save before Ganon.