NOTE: This story operates with only seasons 1-3 as canon. I totally haven't watch any of season 4, so any canon thereof will be completely disregarded.
What's the worst a storm could do?
Twilight Sparkle has become an alicorn and a princess, and she has inherited the responsibilities of each. However, while acclimatizing to the new direction her life has taken, a mysterious storm begins to brew to the far north. There's something that's just... off about it. It feels very strange and very old. Still, what's the worst a storm could do?
As mentioned earlier, this story is meant to take place directly after season three. Just think of it as an alternate universe -- that a significant character made a choice in this universe that he doesn't make on the show itself. The following explores the repercussion of that choice, as well as the MLP: FiM magic universe, its history and those that came before and live above.
But... there's more going on here... isn't there?