Sometimes I'm already annoyed by the cutscenes in Super Mario Galaxy, where I'm getting launched to a new planet.
I dislike losing control over Mario.
Ok with Ocarina of Time, good example... Maybe it's a love/hate relationship. I love the scenes, especially with Link. In the meanwhile I keep holding my controller, impatiently waiting to take control again. I enjoy the story, the quiet parts that can't be easily told in another way.
BUT! OoT does it wrong in one point. Dealing the final blow to Ganon. I HATED the game for stealing my kill. I was about to slash Ganon in the head when a cutscene starts that shows me what I wanted to do myself.
So maybe that's the problem right there.