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- The pizza-loving, shell-busting mutant turtles Leonardo, Donatello, Raphael and Michelangelo, with the guidance of their Sensei Master Splinter, face fierce enemies, save humanity from extinction and battle against life-altering mutations.
- The Turtles meet April O'Neil for the first time. Splinter explains the origins of himself and the Turtles.
- 1987–199623mTV-Y78.0 (431)TV EpisodeThe Turtles find out about the Technodrome and try to find it. Splinter finds the Technodrome and ends up getting kidnapped by Shredder. When the Turtles find the Technodrome, Shredder tells the Turtles who is responsible for covering them in the ooze that mutated them.
- 1987–199622mTV-Y77.7 (367)TV EpisodeA scientist named Baxter Stockman has created a robot meant for hunting rats, called Mouser. Shredder mass produces the robot and programs them to hunt the biggest rat in New York - Splinter. Shredder wants Baxter dead because he knows too much. Michaelangelo finds out about Krang.
- 1987–199623mTV-Y77.4 (353)TV EpisodeThe Turtles take over what's left of Baxter Stockman's equipment, to help them track Shredder and the Technodrome and create the turtle Van. Shredder opens a portal to Dimension X in hopes to obtain new weapons. Instead, The Nutrinos - three teenage hot-rodders, and two of Krang's militant Stone Warriors, General Traag and one soldier, come through.
- 1987–199624mTV-Y78.1 (357)TV EpisodeShredder creates a retro-mutagen gun that can undo any mutation and dares the Turtles to come get it. As Donatello tries to create a fuel source for the vehicle that The Nutrinos left behind, Splinter and the Turtles eventually make their way to the Technodrome just in time to discover Krang in his new body.
- 1987–199623mTV-Y77.4 (272)TV EpisodeShredder returns from Dimension X and sets out to frame the turtles with a group of thugs dressed as them while Dr. Baxter Stockman uses the Ultimate Rat Catcher on Master Splinter.
- 1987–199623mTV-Y77.4 (257)TV EpisodeThe turtles seek out the fragments of the eye of Sarnoth, a crystal with unimaginable power. After finding the first fragment, Shredder steals it and uses it to shrink the turtles. Now Splinter and April must intervene. April is able to enlarge the Turtles, but our heroes lose in the end as Shredder escapes with the first fragment.
- 1987–199623mTV-Y77.1 (232)TV EpisodeAfter discovering that a mutant plant has had its growth accelerated by the first fragment of the Eye of Sarnoth, Shredder unleashes it on the city to attack the Turtles.
- 1987–199623mTV-Y77.1 (220)TV EpisodeUpon finding the second fragment of the Eye of Sarnoth, Shredder uses it as a power source for a supercomputer named Omnis, in the hopes of opening a portal to Dimension X. Meanwhile, the Turtles must deal with machines that suddenly go haywire all over the city.
- 1987–199623mTV-Y77.6 (221)TV EpisodeShredder completes the eye of Sarnoth, attaches it to his helmet, and plans to unleash its power on the world. However, when the Turtles intervene, the helmet falls into other hands.
- 1987–199622mTV-Y77.3 (231)TV EpisodeShredder & Baxter Stockman switch meatballs on some pizzas, used as prizes in a contest, with some weird alien eggs from Dimension X. The Turtles must battle the Xenomorph-like creatures that hatch from the eggs in order to save the city.
- 1987–199623mTV-Y77.2 (208)TV EpisodeThe turtles deal with four mutant frogs who are now under Shredder's command and also deal with a group of anti-mutant enforcers.
- Shredder gets Bebop and Rocksteady back as his henchmen in exchange for Baxter. When Krang tries to exterminate him, a freak accident occurs turning him into a mutant fly.
- Donatello devises a cure to make Master Splinter human again. Meanwhile, Shredder plans to open a gate to Dimension X.
- 1987–199623mTV-Y77.0 (204)TV EpisodeA robot cop, Rex-1, helps April and the Turtles defeat an evil army of robot cops under the control of Shredder.
- 1987–199623mTV-Y77.0 (190)TV EpisodeThe Neutrinos return to Earth after hearing of Krang and Shredder's plan to get rid of the turtles via brain-drain. Shredder finds interest in their Starmobile's ability to open dimensional portals and tries to get his hands on it. Meanwhile, the turtles try to get the Starmobile's main energy source running again.
- 1987–199623mTV-Y77.0 (200)TV EpisodeA freak accident from a transporter turns April into a cat-woman. Irma meets TMNT in order to rescue her.
- 1987–199623mTV-Y77.9 (196)TV EpisodeWhile Splinter goes out on a retreat, the turtles must try to stop the Technodrome from returning to Earth.
- 1987–199623mTV-Y77.5 (175)TV EpisodeThe Turtles learn the cost of slacking off when Splinter is badly hurt during a confrontation with Shredder.
- The intentions of the Ninja Turtles are put to the test when a controversial TV-figure portrays our heroes as menaces to society. The Turtles forego publicly clearing their name to defeat Krang and his new robotic weapon.
- 1987–199623mTV-Y76.7 (171)TV EpisodeIrma accidentally becomes gigantic and her naturally clumsy nature makes her a danger to the city. The Turtles and April hide her and search for her cure.
- 1987–199623mTV-Y77.3 (164)TV EpisodeGangsters are swiping all the antiques in town. And when they swipe most of our heroes, it's up to Donatello and April to find out why. Could Shredder be behind this?
- The Turtles go flying when the Shredder invents a gravity-altering device.
- 1987–199623mTV-Y77.7 (170)TV EpisodeThe personalities of Shredder and Splinter are switched when a device is accidentally activated during a battle between the Turtles and their enemies. As Shredder plans the Turtles' demise and Splinter plans on how to get back to his body, everyone else is clueless.
- In the middle of a summer heat wave, someone is destroying all the air conditioners and taking all the city's freon. In the meantime, Vernon and Burne go looking for the Turtles, but find something else.
- A 14-year-old boy tries his best to help out the Turtles, but with some not so optimal results. In the end, he proves himself to be a great asset to the Turtle team.
- 1987–199623mTV-Y77.4 (165)TV EpisodeA mysterious, sewer-dwelling man has an unnatural ability to put rats under his control. Can Splinter resist, or will he destroy the Turtles at the bidding of the Rat King?
- 1987–199623mTV-Y77.4 (162)TV EpisodeAfter witnessing a living dinosaur wander in the city and disappear abruptly, the Turtles follow its tracks into a large hole, where they discover a shocking revelation: A land frozen in a stage where dinosaurs roam the land.
- Emperor Aleister of Malicuria comes to New York City, bringing along a shard of Lydium 90 to the USA.
- 1987–199623mTV-Y77.2 (160)TV EpisodeA robot warrior, known as the Mobile Armored Computerized Combatant (M.A.C.C.), arrives from 400 years in the future in 20th-Century New York. He befriends the Turtles, but Shredder and Krang are looking to bring him to their side, at any means necessary.
- 1987–199623mTV-Y77.5 (155)TV EpisodeShredder gains possession of an ancient ninja sword that is crafted from an alien metal, allowing it to 'cut' through dimensions.
- 1987–199623mTV-Y77.4 (152)TV EpisodeKrang and Shredder's plan to flush out the Turtles from the sewers leaves the city flooded with water (and creatures!) from the ocean.
- 1987–199623mTV-Y77.5 (151)TV EpisodeFull of self doubt, Leonardo leaves the team. And his brothers all take turns being leader as they try to figure out why the sun is getting smaller.
- 1987–199623mTV-Y77.0 (145)TV EpisodeA bump on the head leaves Leonardo thinking that he is in 17th century France, and that he and his comrades are Musketeers.
- 1987–199623mTV-Y76.8 (139)TV EpisodeShredder programs the city's new garbage collecting super-computer to collect the Turtles. But when Shredder doesn't specify 'Ninja' Turtles, the super-computer collects them all! Turtles of the city of every shape and size are not safe.
- 1987–199623mTV-Y77.9 (171)TV EpisodeShredder has an accident and ends up acting like Michelangelo. The episode has the Turtles dealing with him switching between his evil personality and Michelangelo, to hilarious consequences.
- 1987–199623mTV-Y76.9 (141)TV EpisodeAliens abduct Donatello and Rocksteady.
- A visit to Earth from a Polarisoid results in havoc when Shredder (and later, April O'Neil) comes into possession of the alien's camera, because it does more than just take pictures.
- 1987–199623mTV-Y77.1 (140)TV EpisodeShredder and Krang engineer a love potion that makes Leonardo, Michelangelo, and Raphael all fall in love with Irma. Donatello races for an antidote before Shredder drains a naval submarine of all its power.
- 1987–199623mTV-Y77.2 (139)TV EpisodeBaxter Stockman returns for revenge against the Turtles and Shredder, while our heroes attempt to stop Shredder's plan to siphon water from an underground reservoir.
- 1987–199622mTV-Y77.6 (170)TV EpisodeAn eager vigilante is causing a stir in the city, while Krang and Shredder take control of all the machines in the city. Maybe this new 'hero' can help the Turtles.
- A train accident produces gallons of mutagen that drench nearby cattle. The result is a super bull with a temper!
- 1987–199623mTV-Y77.5 (148)TV EpisodeWhite-collar criminals give new meaning to the term 'hostile take-over.' Casey Jones helps the Turtles uncover who's behind a new wave of corporate crime.
- 1987–199623mTV-Y77.4 (148)TV EpisodeThe Shredder opens a pizza parlor "Weird Pizza" in his latest scheme to catch the turtles. He intends to place a homing device disguised as an anchovy on a pizza, then as soon as the turtles call in with their order and the pizza is delivered, he will send an army of Foot Soldiers into their lair. All he needs is a delivery boy and he ends up hiring the most unlikely candidate: Michaelangelo. This hip turtle is looking for a job so he can buy a new belly board. Not knowing he's really working for Shredder, he jumps into action, and "borrows" the Nutrino Starcruiser. Things go further awry with the Rat King added to the mix.
- 1987–199623mTV-Y77.5 (145)TV EpisodeShredder and Krang produce hi-tech versions of Rocksteady and Bebop to keep the Turtles busy.
- A skilled, and lovely, ninja warrior is hired by Krang to defeat the Turtles. Shredder's replaced, Leonardo's met his match.
- 1987–199623mTV-Y76.6 (133)TV EpisodeSplinter suffers amnesia as the Turtles try to remind him that he is the true leader of the Foot Clan.
- 1987–1996TV-Y7-FV7.3 (141)TV EpisodeOur old friends, the Punk Frogs, are being terrorized by a mutant alligator in the Florida Everglades. Leatherhead teams up with Shredder to battle the Frogs and the Turtles.
- 1987–1996TV-Y7-FV7.4 (135)TV EpisodeIt's Michelangelo's birthday, but none of his brothers seem to remember, and it frustrates him greatly. Meanwhile, Shredder and Krang discover what is possibly an "anti-mutagen" that, after testing it on three rock soldiers, can undo mutations. Shredder, Bebop and Rocksteady are sent to use it on the Turtles, and our heroes have a few close calls.