Zauren basically hit the nail on the head for the most emotional moments for me. But here are two others that Zauren did not mention:
Spoiler:
In episode 17, definintely one of my top three FMA episodes, the scene when Al and Ed are walking through the ruins of their house with Armstrong quietly looking on. And them recalling memories, and then Winry in the balcony with the blinking light... and during all this Bratja is playing. Oh man. Rewatching that episode, I cried during that part
And the other is in episode 8, after Ed almost died, when he sits on the stairs still shaking in fear and he's telling Al about it. So much emotion. And along the angst/emotion line, I really think the first ending held a lot of that as well.
Zauren stole all of the other ones I was going to say, though. GET OUT OF MY HEAD ZAUREN!!!
As for some greedy emotion...