"Medabots" is a science fiction anime series set in a world where children use small, customizable robots called Medabots to compete in battles. The story centers on Ikki Tenryou, a young boy who dreams of becoming a skilled Medabot fighter. Despite his enthusiasm, Ikki struggles to afford a Medabot of his own. His fortunes change when he discovers a rare and powerful Medabot named Metabee, who becomes his partner. Metabee, though initially stubborn and prideful, forms a strong bond with Ikki as they navigate the challenges of Medabot battles together.

The series explores Ikki and Metabee's journey as they participate in Robattles, competitions where Medabots face off using special abilities and tactics. Along the way, they encounter the Rubberobo Gang, a group of thieves who steal rare Medabot parts for their own gain. Ikki and Metabee frequently clash with the gang, particularly its leader, Dr. Aki, and his Medabot, Warbandit. These confrontations drive much of the series' conflict, as Ikki and his friends work to thwart the gang's schemes.

Ikki is supported by a group of friends, including his classmate Erika, who is also a skilled Medabot fighter, and her Medabot, Brass. Other characters, such as Koji and his Medabot, Sumilidon, add depth to the narrative as they compete against or ally with Ikki. The series balances action with lighthearted moments, often focusing on the camaraderie between the children and their Medabots.

As the story progresses, deeper mysteries surrounding Metabee's origins and the Medabot technology are revealed. The narrative delves into themes of friendship, perseverance, and the ethical implications of advanced robotics. The series culminates in high-stakes battles and resolutions that tie together the various plot threads, providing a satisfying conclusion to Ikki and Metabee's adventures.