When a construction site is attacked by XPlode and Rotor, the Alpha Team is dispatched to deal with the situation. Rookie William Furno decides to join in, only to mess things up. This motivates him to train harder.

Three Heroes are caught up in a futile fight against the acid-spewing Corroder, and their only hope is to form a shield, using their energy reserves. But their Hero Cores are nearing depletion, so William Furno decides to jump into action and save his friends.

The evil Meltdown sprays Preston Stormer with a substance that causes him to go insane and threaten his teammates. After he breaks out of the confinements of the Hero Factory, William Furno has to find his leader and save him from himself.

A mysterious black hole opens up above New Stellac City, and the Heroes go to investigate. Upon arrival, not only do almost all the villains show up they've met so far, but their worst enemy, Von Nebula also looms over them.

While Sir Makuro reveals the latest line of upgraded Heroes, a group of power-hungry villains attack Fueling Station 22. It is up to the Alpha Team to clear the site, but their outdated bodies are no match for the powerful villains and their leader, the Fire Lord.

When Rocka goes missing after responding to a civilian's distress signal, Stormer, Furno, Nex, Bulk and Stringer are sent to find him.

When Rocka goes missing after responding to a civilian's distress signal, Stormer, Furno, Nex, Bulk and Stringer are sent to find him.

There is a jailbreak at the maximum security prison of Hero Factory! Criminals like the crazed Toxic Reapa, the evil Jawblade and the schizophrenic Splitface have broken free and are spreading chaos and destruction all across the galaxy! It is revealed that the villainous Black Phantom is behind the prison break, and that it was merely a distraction for the heroes, so he could attempt to destroy Hero Factory's Assembly Tower while they were recapturing the escapees. Evo, Surge and Furno are sent on missions to catch and cuff the villains, while Rocka remains at Hero Factory to stop Black Phantom, who already has the mission managers neutralized, and destroy his Arachnix pet.

There is a jailbreak at the maximum security prison of Hero Factory! Criminals like the crazed Toxic Reapa, the evil Jawblade and the schizophrenic Splitface have broken free and are spreading chaos and destruction all across the galaxy! It is revealed that the villainous Black Phantom is behind the prison break, and that it was merely a distraction for the heroes, so he could attempt to destroy Hero Factory's Assembly Tower while they were recapturing the escapees. Evo, Surge and Furno are sent on missions to catch and cuff the villains, while Rocka remains at Hero Factory to stop Black Phantom, who already has the mission managers neutralized, and destroy his Arachnix pet.

An evil force unleashes alien brains on Makuhero City; the alien brains have the power to turn nice guys into bad guys.

In the city of Antropolis, a drill for a new underground Metro Line project reveals strange creatures called Jumpers from within the planet that abduct the crew. Hero Factory send in Evo to investigate, which leads to an attack on the city by giant beasts. The Alpha 1 Team is flown in to stop the monsters by building battle machines to combat the beasts. Breez discovers that the monsters communicate with each other, while Stormer and Furno get abducted by the Jumpers. The remaining Heroes build more battle machines to explore the underground tunnel, while reinforcements from Hero Factory take on the Jumpers in the city above. After much exploration, the team arrive in the hive nest and discover their missing teammates hidden in cocoons in the custody of the Queen Mother of the beasts, who calls for more Jumpers and beasts to fight in her aid. Surrounded, Breez talks to the Queen and convinces her to free the other Heroes and let them all leave. However, the accidental death of one of the monsters causes the Queen to turn on the Heroes, forcing them to attack her. The pillar containing the nest collapses during the fight, crushing the Queen and sending the larvae falling into the lava. The Heroes escape to the surface where the tunnel is resealed, keeping the monsters inside. The Heroes head back to the Hero Factory, unaware of a Jumper cocoon hidden away in the loading deck of the Hero Craft.