It's been six years since the Great Changeling War. Now, with the Elements of Harmony having been presumably killed defeating Chrysalis, Princess Twilight Sparkle has become the lone ruler of Equestria, and has run out of hope. But with knowledge that one of the Elements might still be alive, Twilight will stop at nothing to find her.

However, there are ancient forces at work in the universe. A Primordial Prophecy has come into play, and the Planes of Existence are falling apart. As Twilight searches for her lost friend, the universe begins to fall apart. With little hope, and even less of an idea of how to stop it, she must find a way to save not only the world... but everything that ever existed.