Each of the 8 teams in the story have their own storylines and objectives, just as in the original. However, all of the storylines are part of one central premise. Many citizens and animal friends have been mysteriously disappeared over the last days, which may have an association with Dr. Eggman, who is preparing an ultimate weapon to help him conquer the world. Meanwhile, a new villain has appeared known as Dr. "Magic", who has teamed up with Eggman to construct this new powerful weapon.