Taking place 3 years after the events of Skullgirls, the city of New Meridian is about to be invaided by an unknown force and another skullgirl. Filia and her allies must team up with a rebelious group of teens to stop the unknown force and the skullgirl to save New Meridian

Taking place in a alternate universe, female lombax Rivet, along with a batch of characters, and her husband Ratchet, must face the biggest challenge ever, to defeat Dr Nefarious once and for all. The world may be grim, but that's just how it is for Rivet and Ratchet... a grim world without any sign of repair. The war isn't over until they say so.