When both the Galactic Republic and Confederacy of Independent Starsystems come to Equestria, the world is torn into civil war. Now, everypony must choose a side, either join those who will fight for the Republic, or those who will die for the Separatists.

Twilight, Rainbow Dash, Fluttershy, Sunset Shimmer, Daring Do, Discord, Luna, Shining Armor, Cadence, Spike, Flash Sentry, Tempest Shadow, and Grubber join the Republic, while Applejack, Pinkie Pie, Rarity, Starlight Glimmer, Dr. Cabelleron, Tirek, Celestia, Sunburst, Moondancer, Thorax, Spitfire, Capper, and Skystar join the Separatists.