After the end of their first life as ponies, Ganondorf, Link, and Zelda are reborn as the Cutie Mark Crusaders shortly before the return of Nightmare Moon. May the Golden Goddesses have mercy upon Equestria.
When Bon-Bon has to leave Ponyville for a while to visit her family in Manehattan, Lyra writes her letters every day. And every day, she gets a letter back. What could possibly be wrong with such loving devotion?
The Crusaders are discussing their next crusade when their fellow classmate, Rumble, asks them for some help regarding his older brother's behavior and they try to figure out why he's acting so strange.
We walk down our long roads of life, but what of the roads not taken? Twilight and Applejack are carried along a different path, where their fates were bound in new ways.
Finding a whelp cold and alone after hatching season, Amber Ironscale brings the poor thing back to her cave and adopts him, giving him the name Heathspike, Spike for short. Her son, Garble, vows to be the best big brother he can be, no matter what.
Applebloom is accidentally left home during Hearth's Warming Eve and must defend her home from thieves. (Obvious tribute to the classic, but still different details.)