Talking about Ocarina of Time, here.
This didn't used ot get me when I was younger, but as I got older Navi flying away really started to get to me. I guess it was just the fact of her leaving, but that's not really it either. I connected to her more as I grew up - I still get chills in the fight with Ganon when she says "He won't hold me back again! This time, we fight together!" - but the moment that makes me choke up is as she's rising and the piano music rises with her, that nice fluttering bit that makes it sound like the whole world is flying away. The story begins and ends with Navi flying, which makes it into a very effective bookend as scenes go, and I would like to blame that for why it tugs at my heartstrings, but if I'm honest with myself I got attached to that chatty fairy and it makes me sad when she goes away.
Of course, I could just be a big weeping crybaby when it comes to music.
