Martin Empire The Martin Empire ( マルタン帝国 " Marutan Teikoku " ) serves as the main antagonists of first half of the series ' third season , though the group ' s creator went on to be the season ' s chief antagonist following the empire ' s downfall . This name is only used in the original version ; the English dub does not give the group a name . History . Following a personal tragedy of his adopted son ' s death , Thelonious Viper was sent on a mission to another country to research an unspecified target , but the plane he and his companions were traveling aboard crashed , with Viper emerging the only survivor . Nonetheless , he carried out his objective and was successful in locating his target – the severed hand of the Duel Monster Yubel – which entered into a pact with him to resurrect his son from the dead . From the onset of the third year , Viper calls for an exhibition match between Jaden Yuki and Jesse Anderson at Duel Academy . Unbeknownst to the two combatants , they are fitted with special wristwatches known as Bio - Band s ( Dis - Belts ) , designed to measure emotions , intensity , concentration , and decision making during Duels . Their true function , however , is to sap Duel Energy from those that wear them following the end of a Duel , regardless of whether one defeats his opponent or not . This gathered energy is then transferred to a chamber within Viper ' s hideout , the lab where Wheeler ( SAL ) was trained , to fuel Rick ' s revival . To jumpstart his project , Viper declares that students of all dormitories must participate in Survival Duels ( Dis - Duels ) , competitions wherein duelists are to carry Bio - Bands as means of assessing their fighting spirit . If a Bio - Band judges that a certain duelist lacks said fighting spirit , he or she will be demoted , and furthermore expelled if motivation does not improve . As a result of the Survival , a large number of students are injured and hospitalized after having their Duel Energy absorbed . Eventually , Viper ' s intentions begin drawing concern from Academy staff , and Jaden and his friends set out to stop him . Tracking him to the laboratory in the jungle , the group is exposed to various sorts of traps and defenses installed to prevent its advance . Jaden would progress to confront and defeat Viper , though Yubel ultimately amassed enough strength to transport Duel Academy into an alternate dimension — a desert plane with three suns and resident Duel Monster spirits . Preying on the loneliness of Marcel Bonaparte , Yubel takes control of the boy ' s body and begins targeting the school ' s students and faculty , transforming many into zombie slaves to recruit more partners , and obtains the Sacred Beast Cards . However , Jesse Anderson succeeds in acquiring the Rainbow Dragon card and uses it to send the Academy and its students home , although he and Yubel remain behind . During this time , Jaden and the Academy return to the dimension to search for Jesse and arrive in a different section of the dimension . While Jaden and the students battle the officers of the Dark World army , Jesse is possessed by Yubel . Intending to use Jesse as the avatar through which to secure the dimension in preparation for an evolution to a more powerful form , Yubel is opposed by Adrian Gecko , who challenges him for dominance even as Jaden rushes to challenge Yubel himself . Although Yubel was exhausted in a duel with Zane it had just previously had , it still defeated Adrian , and recovered its strength in the process . However , when Jaden finally duels Yubel to release Jesse from its possession , it is revealed that Yubel actually removed Jesse ' s soul from his body and placed him inside the Rainbow Dragon before taking over . Although Jaden manages to release Jesse , Yubel escapes and duels Jaden herself . During Jaden and Yubel ' s final Duel , Syrus , demonstrating how much of a true friend to Jaden , follows suit after the two and on the way Syrus ends up talking to Chazz Princeton , who were apparently ' sacrificed ' along with Alexis , Tyranno Hassleberry and Atticus . Chazz informs Syrus that when they disappeared in front of Jaden during his duel against Brron , the King of the Dark World , they were not killed , but transported to a different alternative dimension . The same thing had happened to Axel , Jim ( who lost their duels against Jaden Yuki when he was possessed by The Supreme King ) , Aster Phoenix ( who lost his duel against Adrian Gecko ) and Zane Truesdale ( who lost his rematch against Jesse Anderson when he was possessed by Yubel ) . During the final duel between Yubel and Jaden , Jaden understands that Yubel was a guardian spirit of Jaden when Jaden was apparently a prince of a kingdom . Yubel deciding to be the guardian of him transforms herself into the form that Jaden and the others see now . Syrus , who was watching the duel at the time , saw Jaden and Yubel disappear into what was the center of the 12 dimensions . But before Jaden disappeared , Jaden did his signature pose and promised that he would finish the duel and return when he ' became a man ' . In the center of the dimensions Yubel activates a trap card that would allow her to destroy all the dimensions at once and Jaden at the same time . But Jaden , after realizing that Yubel was doing all this to protect him , uses Super Fusion to fuse not the monsters that Jaden and Yubel had on the field , but to fuse Jaden and Yubel souls together in order to ' become one ' . The duel supposedly ended in a draw and after this , most of the students who accompanied Jaden to the other dimension arrive back in the real world . Zane , Adrian , Bastion and Jaden do not return when the gang came back and are presumed ' missing ' . However , prior to Jaden ' s final duel with Yubel , Bastion decides to remain as a denizen of the alternate dimension with Tania and her friends . The following day , Syrus and the rest of the gang discuss the proud moments when they met Jaden , but Chazz gets reminded on how much he hated Jaden for beating him . As this was happening , Syrus ran off into the forest and remembered the scene of which got his last view of Jaden . But just at that moment , in which he wished for Jaden to return , a shooting star crashes onto Duel Academy island in which the star was actually Jaden returning . With Jaden returned Syrus ran up to him and in which the season comes to an end . After Yubel ' s defeat , Zane is found unconscious on Duel Academy ' s shores in the fourth season and is then brought to the infirmary to recuperate . Adrian ' s whereabouts are currently unknown . Viper ' s Mercenaries . Before the Martin Empire was formed Viper had several duelist to try and gain enough energy for Yubel .