Von Nebula's Gang
- Von Nebula: Formerly Von Ness, a Hero gone rogue on a mission to destroy Hero Factory and revenge on Stormer.
- Meltdown: A psychopathic scientist, skilled in the use of chemicals. his venomous whip is created to corrupt victims turning them wild and insane
- XPlode: An exceedingly rich criminal-for-hire, who works jobs based on the danger level. He is equipped with heat seeking spine torpedoes.
- Corroder: Conniving henchbot who seeks to challenge the status quo, capable of spraying acid.
- Thunder: A strong, but dimwitted criminal who bears a massive crushing claw.
- Rotor: Notorious criminal, a twisted lackey of Von Nebula, equipped with a large propeller on his back for flight and combat.
- Vapour: One of Von Nebula's recruits, with a penchant for using gaseous based weaponry.
Fire Villains
- Fire Lord: A mining bot who went insane, and began a megalomaniacal plot to steal all sources of Hero fuel.
- Jetbug: Insane henchbot of Fire Lord's, noted for his constant giggling.
- Drilldozer: A huge but dimwitted strong member of Fire Lord's group.
- Nitroblast: A smart and devoted member in the Fire Lord's gang.
Jungle Villains
- Witch Doctor: Once a Hero Factory instructor obsessed with Quaza, transformed into an evil tyrant who took control of the wildlife of the planet Quatros for his own evil schemes and attempted to destroy it.
- Scorpio: One of the Witch's powerful servants with a built in stinger and blaster on his tail.
- Waspix: She has an advanced speed and flight, making it difficult to be caught.
- Raw-Jaw: A Gorilla Elephant hybrid that Witch use's for labor to mine for Quaza.
- Fangz: Guard Dogs to Witch, Making sure they're master succeed to his plan.
Legion of Darkness
- Black Phantom: A powerful villain who planned to destroy the Hero Factory's Assembly Tower and planned the Factory Breakout.
- Voltix: A cunning, electricity wielding villain who initiated the Hero Factory villain breakout.
- Speeda Demon: An insane villain equipped with a nitro-rocket bike.
- Toxic Reapa: Criminal from the jungle planet Z'chaya.
- Jawblade: An aquatic shark villain hailing from the planet Scylla.
- Splitface: A criminal with a split personality.
- Thornraxx: An aggressive insectoid from a hive planet.
- XT4: A crazed worker bot from the planet Mechna.
- Core Hunter: A cruel villain and former Hero who hunts Heroes for their cores. Once friend of Preston Stormer.
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Brains
- Dark Creator: The original "Mastermind" behind the Brains attacking the city, His physical appearance is unknown and is possibly working for Von Nebula.
- Brains: Organic creatures with an imperative to destroy the Hero Factory, capable of possessing other creatures.
- Pyrox: Once a small bull creature, turned fiery minotaur controlled by a Brain.
- Ogrum: A plant ogre under the control of the Brains.
- Bruizer: A rock monster possessed by a Brain.
- Scarox: Formerly a Dune Crawler, transformed into venomous creature under the direction of the Brains.
- Aquagon: An aquatic creature transformed into a hostile invader by a Brain.
- Frost Beast: Snow creature transformed by the Brains into an icy villain.
- Dragon Bolt: An electric dragon, controlled by a Brain.
Beasts
- Queen Beast: The ruler of The all Beasts, who defends her nest inside a giant cave deep underneath Antropolis.
- Jumpers: Insect-like creatures that live under the city of Antropolis.
- Jaw Beast: One of the Beasts from under Antropolis that has a big jaw and menacing pincers.
- Flyer Beast: One of the Beasts that can fly and uses a tower and a claw as weapons.
- Splitter Beast: A Beast that can split in two. It carries a lamp post as a weapon and uses its plasma claws to attack.
- Tunneler Beast: A Beast who can tunnel its way through the ground with its acid talon.
- Crystal Beast: One of the Beasts that stands guard inside the Jumper's crystal cave.
Others
- Nathaniel Zib: Chief officer to Hero Factory who helps our heroes in case of damage or upgrading they're armor and weapons.
- Quadal: Zibs trusted assistant drone who has four tentacle like arms.
- Akiyama Makuro: Founder of Hero Factory who believes in a bright future for Makuhero city.
- Daniella Capricorn: Female reporter to Makuhero City News who is constantly filming heroes due to it excitement, She can get a little rough from her annoying camera bot.
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