While
Cobra Commander and
Serpentor blame each other's stewardship of
Cobra as the root cause of the organization's failures, Pythona, a woman from the secret civilization Cobra-La, infiltrates the Terror Drome. While there, she reveals to Serpentor that Cobra-La was responsible for inspiring
Doctor Mindbender to create him through dream manipulation. At her urging, Serpentor plans to capture
G.I. Joe's latest weapon, the Broadcast Energy Transmitter (BET). Cobra assaults the Joes as they test the BET in the Himalayas. The Joes use the BET to activate their automated weapons systems. Serpentor is captured and Cobra Commander orders a retreat. Cobra Commander leads his troops into Cobra-La, the hidden underground city that serves as their headquarters. As the Joes celebrate their victory, a new group of rookie Joes are brought onto the team. The newcomers include the allegedly clumsy
female ninja Jinx; military police officer
Law (and his dog Order); former basketball player
Big Lob;
EOD specialist
Tunnel Rat; undercover officer
Chuckles; and
Duke's reckless half-brother,
Lt. Falcon, a
Green Beret. In Cobra-La, seven of the Joes are ambushed and detained within the
Lovecraftian living environment. The Cobra soldiers are met by the civilization's leader Golobulus, who has Pythona and his other henchman, Nemesis Enforcer, arrest Cobra Commander. While there, Cobra learns about their history: 40,000 years ago, Cobra-La was a prehistoric civilization that ruled Earth. However, the Ice Age, the evolution of humans and their development of scientific technology resulted in Cobra-La's survivors being forced into caverns within the
Himalayas. Cobra-La rebuilt their society in secret as centuries passed. Golobulus vowed to destroy humanity so that his people could reclaim the earth. He eventually discovered a nobleman who was working on biological weapons. The nobleman later became Cobra Commander, charged with conquering the world for Cobra-La. However, Cobra Commander's repeated failures caused Golobulus to use a Psychic Motivator on Doctor Mindbender to create Serpentor. Meanwhile, a disguised
Zarana uses Falcon to infiltrate Serpentor's holding cell. Falcon is put on guard duty by his older half-brother Duke as a punishment for skipping the training earlier. Falcon abandons his post to flirt with Jinx, while the Dreadnoks and Nemesis Enforcer free Serpentor, injuring
Alpine,
Bazooka and
Gung-Ho in the process.
General Hawk lectures Falcon on dereliction of duty and confines him to his quarters until
court-martial. In Cobra-La, Cobra Commander is tried and Golobulus reveals his plans to launch spore pods, filled with mutative spores into space and use the BET to hatch them thus dooming humanity. He punishes Cobra Commander for his repeated failures following his trial by exposing him to the spores, which transforms Cobra Commander into a snake. He flees and makes his way to the Joes' camp with Roadblock. Convinced by Duke to spare Falcon from a harsh punishment, General Hawk reassigns Falcon to the "Slaughter House" where he is to be retrained by
Sgt. Slaughter and his "Renegades" consisting of ex-
Viper Mercer, former football player
Red Dog, and former acrobat
Taurus. On a weaponless recon mission in the Terror Drome, the five learn of Cobra's plans and that the
Baroness has discovered the location of the BET. As Falcon and the others destroy the Terror Drome, Cobra launches an assault on the Joes. The Joes launch a counterattack on Cobra, but the BET is stolen. Serpentor attempts to kill Falcon, but Duke intervenes and falls into a coma. Falcon, the Renegades and the new recruits head to the Himalayas to stop Cobra-La. The G.I. Joe team is led to Cobra-La's lair by Cobra Commander. The new recruits prove themselves valuable soldiers as the Joes rescue their captured teammates. Falcon, Jinx and Sgt. Slaughter confront Golobulus, Pythona and Serpentor. The ensuing fight culminates in Jinx and Slaughter sending Pythona and Nemesis Enforcer falling to their apparent demise. Finally, Falcon sends Serpentor out of Cobra-La and reconfigures the BET to incinerate the spore pods in space and destroying Cobra-La as Golobulus escapes. Immediately following the battle, the strike team receives news that Duke has come out of his coma and is recovering. == Voice cast ==