Season 3

01 Day of Recovery Episode 114th September 2002 X-Men and the Brotherhood deal with the aftermath of the world finding out about mutants. The Institute is blown up, and Mystique posed as Prof. X to blow it up. Some of the X-Men and Brotherhood are captured, leaving the mutants that escaped to find them and the Professor. 02 The Stuff of Heroes Episode 221st September 2002 Rogue and Wolverine duck a squad of soldiers when the nationwide alert goes out against mutants, while Storm and Beast go into a meeting of Congress to defend themselves. Meanwhile Juggernaut goes on a rampage and the X-Men feel obliged to take him down. 03 Mainstream Episode 328th September 2002 During the rebuilding of the manor, Kitty and Kurt intercept a bunch of graffiti artists disguised as monsters. The older students get to go back to Bayville High for one day before attending a hearing to determine their ultimate fate, while they are banned from using their powers. 04 The Stuff of Villains Episode 45th October 2002 Wanda goes searching for Pietro. Meanwhile the brotherhood's members are expelled from school, much to Lance's dismay. 05 Blind Alley Episode 519th October 2002 Mystique escapes from imprisonment while the X-Men repair and rebuild the Institute. Disguised as Alex, she lures Scott into a trap - leaving him stranded in the middle of the Mexican desert without his glasses. 06 X-Treme Measures Episode 62nd November 2002 Evan enters an extreme Skateboarding competition, and puts his skills to the test. But something is wrong: A mysterious woman is watching and following him during the competition. 07 The Toad, The Witch, and the Wardrobe Episode 79th November 2002 Wanda receives a clue from one of Magneto's minions, Pyro, directing her to a ski resort. Meanwhile, Kurt is meeting Amanda's parents for the first time, and the Toad believes he can use Kurt's holo-inducer to disguise himself and win Wanda's love. 08 Self Possessed Episode 816th November 2002 Rogue begins to lose control of all the people she's ever absorbed as they fight to take over. She discovers unsettling information about Mystique. Scott and Jean go on a date... or do they? 09 Under Lock and Key Episode 930th November 2002 Mesmero mentally controls Gambit into stealing half of the Spider Stone from Angel. 10 X23 Episode 102nd August 2003 A mysterious female assassin terrorizes the X-Mansion, knocking out the X-Men one by one. Wolverine finds out that it is his clone, created by the Dr. Deborah Risman and raised without love by HYDRA, and she wants to kill him because she holds him responsible for her miserable life. Wolverine and X-23, as she is called, square off in a battle that Wolverine does not want to win. 11 Dark Horizon (1) Episode 119th August 2003 As Jean's and Scott's graduation day approaches, Rogue suddenly leaves the mansion. 12 Dark Horizon (2) Episode 1216th August 2003 As all the monsters in the tomb attack, the teammates fight to survive and find a way out. 13 Cruise Control Episode 1323rd August 2003 The X-Men are on vacation with Storm as their guardian. Amara falls ill while on the ship.