Even after all he's done, Odin and Hel are still willing to forgive Loki.
The fact that previously unredeemable villains like Sol Seraph, Stronghold Halfdragon, and even Valthrudnir himself get their own chances at redemption is heartwarming in itself.
Moment of Awesome: Because Love Conquers All: Celestia, after burning down the Temple of the Sun. It's dark as hell, but the imagery is amazing.
Tear Jerker: The later parts of Because Love Conquers All: Seeing beloved ponies like Applejack and Princess Luna slip off the deep end can bring tears to the eyes of some.