Equestria, located near Coruscant, was a neutral and unknown planet in the Clone Wars. However, an argument between the Earth ponies, Unicorns, and Pegasi started a global shortage of food and led to the brink of a civil war in Equestria. The princesses all agreed, after seeing no other option, and declared the start of intergalactic trade. This was a temporary rule, but since trade flourished, Equestria soon became dependent of it.

Soon after some trades, both the Republic and the Separatists discovered the planet, and immediately started negotiating alliances to Equestria through Princess Celestia, due to its indefinitely important position. She declined all the offers in an attempt to keep peace from the war, however Count Dooku then ordered a major part of the droid army to attack onto Equestria, and quickly took over some of the land. Princess Celestia sent a desperate transmission for help to the Republic, by allying them, making it possible to send some kind of reinforcements.

Now, Anakin Skywalker, Obi-Wan Kenobi, Mace Windu, and Jedi Master Yoda himself with their clone forces try to defend Equestria from the Seperatist army. After landing on the planet, they found out that their troops are heavily outnumbered, and the Separatists know their every move. With only some many troops and no extra reinforcements coming for a while, they might only delay the inevitable.