The most emotionally intense moment I've ever experienced in a video game (and I've played a lot of video games) was crossing the border into Mexico in Red Dead Revolver. The hairs on my arms stood on end. The YouTube clip [0] doesn't do it justice because it misses the context and buildup. Just magic.
That and docking with a spacestation in Elite to the Blue Danube waltz.
I never played Red Dead, but my most memorable video game moment I think was the end of Brothers: A Tale of Two Sons. I can't say more w/o spoiling it but the way it mixed game and narrative was inspiring.
That and docking with a spacestation in Elite to the Blue Danube waltz.
[0] https://www.youtube.com/watch?v=AUXGW6sWYDY