Paco has convinced himself he's no longer a superhero and has lost his superpowers as he falls deeper into alcoholism and depression. But when a little girl is trapped in an abandoned military base, and only Paco can save her, he almost relearns how to fly in order to save her. Sure, it was more like a rather large jump and he crashed upon leaving the base, but it's the effort that counts. It's probably the most heartbreakingly sweet cutscene in the game.
The scene with Boots and his alien informant on Anachronox always makes me go "awww". The one where he says "You'd be amazed what people miss when they don't look up."