Mike Fukanaga is an awkward high school student who discovers that he comes from a long line of ninjas; Mike becomes the leader of a team of crime fighters.

The ninjas pursue a cat burglar who will stop at nothing to get what she wants.

A villain escapes from prison and intentionally gets caught in order to be reunited with his motorcycle gang in another prison.

The ninjas take on chess prodigy villain named Checkmate who challenges them in chess-related games putting their lives in danger. Amanda feels she must overachieve at other things after getting her f…

Owen is having a hard time with the boring discipline of Grandpa's teachings. When he recognizes that an old friend is part of the dangerous Subsiders parkour crew, Owen infiltrates their underground …

A biology teacher in school is experimentinting a cure to all diseases with insect DNA. He accidentaly adds too much and turns into a monster. Meanwhile, Mike's annoying cousin Conner stays over for a…

A masked eco-terrorist seeks revenge. Amanda falls for a rich boy who could be the ninjas new enemy.

Mike and the gang are suspicious when unlikley suspects turn bad, including one of Mike's own uncles. Meanwhile, Connor is filming everyone doing embarrassing things for his made-up show, "Conn'd."

When Amanda is kidnapped by a villain who turns people into living dolls, Owen and Mike must infiltrate the villain's lair to rescue her.

The ninjas must stop a mysterious assassin hired by the mob to kill a star witness being protected by Martin.

A computer geek leads a double life as a super hero named Kickbutt (Lucas Cruikshank), but his alter ego gets in trouble when he steals a mob boss' (Mark Lindsay Chapman) money and uses it to renovate…

A magician (Vince Corazza) fakes his disappearance, and Owen tries to solve the mystery by reviving his and Mike's magic act, which Mike doesn't favor. Meanwhile, Amanda tries to have a proper date wi…

A gang of thieves go undercover as prep-school girls.

Mike and Amanda try to cheer up Owen by taking him to a concert at the school.

Amanda struggles with popularity after she isn't invited to Melanie's party, but she soon gets invited thanks to Kelly; however, Owen is throwing a party on the same night, so Amanda attends both. Mea…

A demented psychiatrist lures the ninjas to an asylum to test his theory that he has the power to turn good into evil. While investigating, Amanda meets Checkmate again, who in the end of the episode …

One Hour Special episode

Note: Nick considers Ishina as a single episode.

The ninjas must stop a villain named "Quake" (Esteban Cueto), a large man with metal gloves that is terrorizing the city. Amanda starts to have feelings for Mike. During training when they are balanci…

Mike goes on a police ride-along with Martin. A villainous brother named Optic (Dennis Keiffer) and his sister Buzzsaw (Danielle Burgio) the duo steal purple diamonds around the city to bring their dy…

The ninjas end up in detention and discover Jellyface escaped from prison. Now against one another, they try to figure out who's Jellyface before it's too late. Meanwhile, Amanda lies that she got det…

A string of burglaries have occurred and Mike is convinced the Skeleton Crew, an underground secret society with ties to Benjamin Rush High School, is to blame. Yet Amanda and Owen are doubtful of Mik…

Limedark (Danny Masterson), a former college actor, kidnaps his former cast mates, who have become famous, and has horrible plans for them. Meanwhile, Owen has trouble hiding his ninja skills and almo…

A man named Frostbite (Steve Monroe) starts to capture criminals and do the ninjas' work for them. But Amanda gets suspicious of him when she finds out the police still think they're on the loose. Mea…

Tensions flare after Grandfather traps Mike, Owen and Amanda in the dojo to stage an intervention, realizing they've forgotten the true meaning of being Ninjas. Through flashbacks and clips, the Ninja…

Mike's cousin, Connor, returns to Empire City to obtain the floating sword and set up a trap to the ninjas. Mike discovers Connor's identity as an Ishina. He also discovers that his grandfather's twin…

In the second-season opener, Connor's motives become clear to the trio, who realize they've underestimated how big of a threat he is.

Amanda McKay starts to develop feelings for Flint Forster, a thief who specializes in the redistribution of wealth, but in trying to keep her crush a secret, her strange behavior leads Owen Reynolds t…

Owen Reynolds is excited to enjoy the fame brought on by a viral photo of him in his ninja suit, but before he can come forward, an impostor called the Shadow Master takes credit for the picture, stea…

Martin catches Mike sneaking out of the house and grounds him, and now Mike must find a loophole in Mike's rules that will allow him to help the ninjas stop Evil Grandpa and the Ishina from using thei…

When Amanda and Mike pair up in the science fair, Owen gets stuck with Quinton as a science fair partner. Quiton does all the work and gets his project stolen from an evil scientist's assistant.

A cheerleader who was once Amanda's rival is released from juvie, and still holds a grudge against her old foe; suspecting that the rival cheerleader will cause problems, Mike and Owen try to catch he…

When Mike forgets about Martin's birthday, he throws him a last minute party to compensate, but when Ishina crash the party, Mike has to find a way to get his dad out of the house while keeping up the…

The Ninjas bring in Kid Q to fix the dojo after it is destroyed and bring Hologramps back, but Kid Q stays longer than the Ninja's had allotted for, and on top of that, he lets Two Ton Harley, their o…

Flint Forster discovers Amanda's true identity and gets a look at her life as a ninja, and when a counterfeiting student takes Amanda and Flint hostage, Mike is forced to save his rival in addition to…

Owen pursues his crush on Paloma Peru; Mike and Amanda bond while filming an audition tape for a game show.

The Ninjas investigate a social media star who uses flash mobs to incite chaos; Paloma grows suspicious of the ninjas.

Flint asks Amanda to the Spring Fling; Mike must team up with Flint to rescue Amanda; Amanda must decide if she is going to stay in Empire City or study in Paris.

Mike's Cousin Connor returns as a spy and learns that the Kata is the key to finding the floating sword. He tries to retrieve it, but Mike defeats him and takes the sword. At the dojo, Quinton manages…