Legend of Zelda: Skyward Sword [SPOILERS]

That would almost have to imply that they have these stories pre-planned, though, which isn't the case (as far as we've been told by Aonuma, at least). ^_~

That doesn't imply that at all. It just implies that they're horrible writers (and all evidence DOES point to this) and have to fill in the many plot holes they create by making a story that jumps around without any real consistency.