My favorites parts are...
Super Mario RPG:Legend of The Seven Stars. My favorite part of this game was after you beat Yaridovich(the 5th star boss) because after that was when all the good parts of the game started to come together. Also the weapons from that part. They were great.
Final Fantasy X: Favorite part had to be right after the invasion of Bevelle.
Those are just two of my favorite parts of RPG games i have played. what are yours?
Nearly every part of Xenosaga Episode I, especially the beginning of the game, when the gnosis attack and KOS-MOS "awakens".
I also quite enjoyed the Floating Island and Kefka's Tower in Final Fantasy VI. Those parts were really entertaining to me.
my fav part of a RPG was on Final Fantasy X. The day I went to the rental store and did NOT rent it.