Great Hero Purge

The Great Hero Purge referred to the efforts initiated by Sonic the Hedgehog to eradicate the heroes. It began with the deaths of Mario and Link at the hands of Sonic. Sonic, Ganondorf, Wolf, Meta Knight, Wario, and Bowser issued Order 66 to all Assist Trophies and Pokemon to execute the SSBB heroes. All of the other heroes were declared enemies all over the universe. Some heroes fought the New Villain Alliance until their deaths, like Yoshi and Daisy. Right now, Peach, Pikachu, the Ice Climbers, and Heishiro Mitsurugi are preparing for a confrontation with Sonic, Darth Vader, and their companions, including Vader's secret apprentice, Jacob Nion.

The Hero Rebellion
After the final death of Black Doom, Sonic told his companions that they were now ready to kill the Brawl heroes, but as Link turned around to leave, he was stabbed in the back by Meta Knight. Mario arrives and finds out that Sonic was actually planning to kill their own allies. Sonic then dueled Mario, while killing Link in the process. At the climax of the duel, Sonic overwhelmed Mario by grabbing, and crushing him, thus letting the heroic plumber fall to his death. After Mario's death, Sonic and his companions, with Wolf replacing Link, began the Great Hero Purge.