I am not sure if Miyamoto should be credited for this, but I realized that the guys at Nintendo were genius when I reached Ganon's Tower in aLttP.
From the moment you get the pegasus boots, you notice something weird. Everytime you run and hit and obstacle, you bounce back a little. It doesn't really damage you, but it looks like you were hit. It's kind of annoying, but you deal.
BUT, in the very last dungeon, there is a platform that you can only reach by abusing the bounce from the boots. Every other method that the game has trained you to use (hookshot, the staff that makes blocks) to jump over pits fails.
When I realized this, my mind was blown. The bounce back was useless through the whole game, yet, you can use it there to reach a couple of extra faeries.