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In their underground lair deep beneath the city streets, the Turtles and Master Splinter are suddenly attacked by a horde of Mouser robots!

The Turtles discover the source of the Mouser robots that trashed their old lair: Dr. Baxter Stockman -- a noted technological genius/inventor, who tries to pass off the Mousers as a means to eradicate the city's rat problem.

When April O'Neil wakes up in the Turtle's lair she has major trouble dealing with the reality of four giant talking Turtles and a Zen-master rat. She soon learns of the origin of the Teenage Mutant Ninja Turtles and they realize their common enemy is Baxter Stockman and his army of robotic Mousers.

Raphael is a little cooped up underground with only his brothers and Master Splinter. When Raphael almost clobbers Michelangelo in some brotherly sparring, it's apparent that Raphael needs to get out ... let off a little steam. But when he meets up with Casey Jones, a vigilante erring a little to the right of justice, Raphael must face the reality of his own hothead ways...

When a scientist accidentally unleashes a super-powered Nanotech monster with a childlike mind, it adopts a small-time thief as its father figure, and the mayhem begins!

The Turtles, investigating a strange blackout, discover the Foot Ninja stealing a Japanese ceremonial sword from the Metropolitan Museum of Art.

After Casey Jones makes himself an unwanted guest in the Turtles' lair, Raphael takes him topside for a "breath of fresh air", where they encounter the Foot Tech Ninjas.

On a nightly training run, the Turtles and Casey Jones break up a Purple Dragon robbery. One of the perps is Angel, a girl Casey knows from the neighborhood who's going through her initiation rites to become a Purple Dragon.

The boys have made friends with a group of homeless, and are worried when they start mysteriously disappearing into the night!

Oroku Saki (aka the Shredder) attempts to convince Leonardo that Saki is fighting the good fight ... that he's out there carrying on the great tradition of Bushido and Ninjitsu, and the turtles should stand with him.

Our four turtles stand facing their most formidable foe to date ... the Shredder. Beaten and battle weary, the turtles get separated from one another during the martial arts mayhem and a building collapse!

Believing the Turtles can accomplish so much more for the city, and inspired by iconic superhero Silver Sentry, Michelangelo decides to take a crack at being a superhero.

When Don's examination of some mysterious crystals attracts the attention of a subterranean monster, the Turtles underground exploration unearths a Foot Genetics Lab!

After discovering an abandoned underground Foot Genetics Lab, and being attacked by once-human Digging Creatures, the Turtles assist those very creatures in trying to repair a Force Field.

After befriending the once-human creatures in an abandoned underground Foot Genetics Lab, the Turtles join them on a journey deeper into the earth, where they come upon the ruins of a once-great subterranean city.

With all the turtles living in April's apartment, things are getting a little crazy. But, when Donatello stumbles upon a fantastic monster in the basement, things get crazier.

On a training run Leo is ambushed by a major Foot attack force, including Foot Tech Ninjas, their old enemy Hun, and a new threat: the Foot Elite!

When the Foot Ninja attack April's apartment in force, the Turtles fight against overwhelming odds to get the wounded Leo to safety.

The Turtles, Splinter, Casey and April just barely manage to escape from the explosion that destroys the antique store. They hit the road and hide out at Casey's grandmother's old farmhouse, but Leonardo is badly wounded.

Still recuperating up at Casey's grandmother's farm, the turtles are feeling the sting of boredom. Luckily, a scientist known as the "Monster Hunter" has come to the area searching for a legendary monster...

The Turtles return to New York with one goal in mind: to destroy the Shredder once and for all.

The Turtles and Splinter continue to fight their way up through the Foot Headquarters skyscraper, facing down three misshapen Mutant Shredder Clones, a hallway of traps, and the Mystic Ninja.

With Stockman showing up in the middle of the final battle between our heroes and the Shredder, everything is thrown into chaos ... so much so that our heroes must join forces with the Shredder and Hun to defeat Stockman.

With Splinter mysteriously vanished, the Turtles are feeling frustrated, not knowing where to start looking. Impatient with strategizing, Raph heads off on his own - and straight into trouble, of the mobster kind!

After the frustrated Turtles exhaust their search for Splinter, their suspicions turn to the Guardians, and the trail soon leads them to a non-descript building, the initials of its company name spelling out "TCRI."

The Turtles successfully infiltrate the mysterious TCRI Building, where they manage to sneak into its inner sanctum, and locate the unconscious Splinter inside a stasis tank.

The Turtles are taken across space to the Planet D'Hoonnib - and right into the middle of a Police arrest!

They befriend Professor Honeycutt, alias The Fugitoid, who is being pursued by the military forces of General Blanque. The General wants Honeycutt's teleportation device, perhaps the only way The Turtles will reach Earth again...

Still trapped on D'Hoonnib, the Turtles and The Fugitoid visit a seedy night club in an effort to find transportation off of the Planet. But General Blanque intercepts them, and, in the battle that follows, Fugitoid is captured by another party interested in the teleportation device...

Captured by the Triceratons, the Turtles are used to persuade the Fugitoid to work on his teleportation device. Trapped in a jail cell, the Turtles plot an escape plan. But will it work? And can they get to Fugitoid in time?

The Turtles are brought to the Tri-Sports Arena, where they have been selected to battle as Gladiators. For the Triceraton crowds, the only way to gain victory is by showing no mercy...

The Triceratons do battle with the General Blanque's forces and in the chaos, allow the Turtles to capture the Triceraton Prime Leader as their hostage. They prepare to return home using the Fugitoid's teleporter, but there's only one problem : he's never tested it

The Turtles arrive inside TCRI, and are reunited with Splinter. They also find themselves facing old ghosts as well as their origins are revealed to them at last...

The Turtles and Splinter use Virtual Reality technology to learn of the Utrom's presence and purpose on Earth, but an old enemy believed dead returns to make the journey VERY real...

The Turtles and Splinter escape the Utrom's virtual reality device, but now they must escape TCRI before it is destroyed. Buttheir only way out is hampered by one small obstacle: SHREDDER AND THE FOOT!

The Ultimate Ninja, a warrior from across the galaxies, has come to take the head of Shredder - only to find Leonardo has already done the deed. So now The Ultimate Ninja challenges Leonardo in a battle to the death...

The Turtles retreat to Casey Jone's Grandmother's farm house to reflect on their recent battles. But the figure of the Shredder still haunts their every memory. What is the Shredder's connection to the Turtles origins?

When Nano returns to take revenge on the Turtles, the four brothers must stop his rampage. But this is made more difficult when Nano springs his "Father" from prison...

The Turtles are about to discover that the Mutagen that transformed them, has had an effect on other creatures as well. They must now defend their territory from the rampage of the insidious alligator Leatherhead...

The Turtles return to the underground city but they find the city is now abandoned, it's crystal moon power source missing, and it's human population reduced to monsters. Can an unstable serum created by Donatello restore the humans to normal?

The collapse of Shredder's crime empire means the city is open for the most vicious gangs to seize control for themselves. New York is plunged into chaos and anarchy, and only the Turtles can maintain order..or can they?

The Turtles are caught in a power struggle for the city : The Foot, the Purple Dragons, and the Mob, all want a piece of the pie. Are the boys able to save the city from anarchy? And is it their problem in the first place?

With the Foot, the Purple Dragons, and the Mob becoming more than the Turtles can handle, the TMNT reluctantly call on the help of Shredder's old General: Karai.

Whilst testing out their new Shell Sub, the Turtles are forced to sink or swim when they discover their old enemy Garbageman is creating his own underwater city.

Casey Jones joins the sport of Super Slam Hockey. However it turns personal when a legendary 17th century Golden Puck is taken by crooks. Can the Turtles hold Casey in line long enough to find the Puck, or will the hardcore rules of Super Slam Hockey get to them first?

Shredder deploys an army of Foot Mechs and a Cyborg duplicate of Splinter against the Turtles.

Shredder's army of Foot Mechs confront the Turtles, but even if they defeat this army, can they stop Shredder? And how does a Triceraton warrior called Zog fit into it all?

The Turtles help April unlock the secrets of an ancient Puzzle cube left behind by her father. The puzzle's solution takes April and the Turtles on a journey of discovery..to another dimension filled with giant insects!

Michelangelo's quest to collect a rare comic take the TMNT and Casey Jones back to Northampton, Massachusetts. Here they uncover a plot by a madman to kidnap the members of a retired super-hero team called The Justice Force.

Every three years, Splinter leaves his students to go to parts unknown. Curious, the four Turtles decide to follow him this time. The pursuit of their master leads the Turtles into something they never expected, right into the middle of the "Big Brawl" : The Battle for the Nexus, a brutal tournament where fates will be decided...

The Turtles discover more about their master Splinter as the Battle Nexus tournament continues. They also have a run-in with a warrior who Splinter defeated in the tournament three years ago: Lord Draco.

The Battle Nexus tournament begins to take it's toll on the TMNT : Leonardo is poisoned, Splinter is framed, and Lord Draco moves closer to victory.

The Battle Nexus Tournament nears it's conclusion : Dontello finds himself fighting for his life with Usagi Yujumbo as Mikey is poised to become Battle Nexus Champion. Leonardo's condition worsens, and Splinter is still in prison. Worse still, Lord Draco now has control of the Daimyo Warstaff...

The Triceratons have invaded looking for the Fugitoid. Unfortunately, no one on Earth knows what the heck the big horn heads are talking about.

Having managed to rescue Casey and April from becoming slaves, the turtles have lost Donatello to the Triceratons. Donatello tries desperately to convince Prime Leader Zanramon that the Fugitoid is not on Earth!

Searching for the captive Donatello, Leonardo, Raphael and Michelangelo sneak their way into Republic Central, the hub of the Triceraton Homeworld.

Just when the turtles think everything's under control with the Triceratons leaving fully convinced the Fugitoid is not on planet Earth, the Fugitoid shows up!

Just when our four turtles thought they had fooled the Triceratons and disguised the Fugitoid, they find themselves captives of the Military.

At the secret Federation/military base, the turtles are about to be dissected by Agent Bishop, a very bad resident of planet Earth. Luckily, our odd trio of commandos (Splinter, April and Casey) are moving in for the rescue.

Welcome to the New World...same as the Old World. While the Turtles attempt to assess the damage around their lair, they find that adjusting to their post alien invasion lives might be harder than they thought.

For a two ton reptile, Leatherhead actually makes the ideal houseguest; neat, tidy, always pays his rent on time... except for the fact that his temper is really out of control.

Donatello, Michelangelo and Raphael come across a band of crazed, heavily armed, alien-hating Survivalists, bent upon delivering and detonating a thermo nuclear device in New York City.

When Michelangelo and Leonardo are out getting a little night air, they cross paths with a caped crusader who ends up saving their lives. The Turtles soon learn that he's really a cop who is out to get the one man who ruined his career.

April asks the Turtles to help perfect her ninjitsu skills. But the Turtles are reluctant to do so and recount a story about how they once tried to take a "student" under their wing. They just weren't prepared to be teachers.

Christmas is supposed to be a time of giving, not taking! But when a dangerous gang of thieves hijack a truck full of holiday toys on it's way to an orphanage, it's time for Michelanglo to start passing out some season's beatings!

The "savior" of New York City, Oroku Saki, has another face: the Shredder. The turtles stumble upon the Shredder's real reason for "helping" New York.

When Angel's brother disappears in the Wall Street area, the turtles jump to help her. Turns out that, as a result of all the destruction from the invasion, an ancient horror has been stirred.

The Shredder sends Stockman and Hun on a quest to retrieve an Antigravity Generator from the city of Beijing, which is still floating in the upper atmosphere, thanks to the Triceratons.

The Entity and his kind are awakened through a rare planetary alignment, and, harnessing great power, they proceed to start shifting the tectonic plates in order to bring back their world.

The turtles get sucked into a time traveling adventure by the somewhat vapid but totally cute Renet, Apprentice Timestress.

Hun's always been loyal, but too many failures have tarnished his relationship with his master. But when Karai is captured by Bishop, the Shredder gives Hun a mission in which he can redeem himself: save Karai and bring her back alive.

Ultimate Drako is back and he's causing all sorts of chaos with the Time Scepter. He's sent the four turtles spinning through time into alternate realities.

Because of Ultimate Drako's machinations, Raphael finds himself in an alternate reality... of the Planet Racers. This is right down Raphael's alley... until that alley turns into a dead end and he's heading right for it!

Ultimate Drako's time manipulations have sent Donatello to an alternate reality... and it's not pretty. It's one possible future, a horrible nightmare. The Shredder is all powerful.

Ultimate Drako is causing trouble with the Time Scepter. He blasts Leonardo into another dimension... Usagi Yojimbo's dimension.

Leonardo and Usagi arrive in the Battle Nexus hoping for a way to reunite the four turtles and their master. But they find the Battle Nexus under the control of the evil Ultimate Drako and Master Splinter is his prisoner.

Bishop is back and making his move. His research demands a mutated specimen closer to human... a rat: Master Splinter. Bishop kidnaps Splinter and moves to finish the creation of his genetically enhanced super soldiers.

Splinter receives a vision of his Master Yoshi...and a mission. He must stop the Shredder. Time is running out. He doesn't know how to explain it to his sons, but they need no explanation. They're with their father to the bitter end.

The Shredder is leaving Earth in a spaceship of his own construction intent upon wreaking havoc on the Utroms and the galaxy. But he's taken on some unwanted passengers and they're not about to let the Shredder get away.

The Turtles hide out at Casey's farm to recover from their battle with the Shredder. However the ghosts of Casey's past come back to haunt him when his cousin Sid arrives with a gang in tow...

The Turtles bear witness to a rumble in the urban jungle between two alien princesses, fighting for the right to party and rule. Pistols at twenty paces. Tally ho.

Ascending to new heights, the Turtles aid the winged warrior named Raptarr against the renegade Mephos to save the floating city of the Avians.

The Turtles face a species of the deep, and when April gets too close to the action, she grasps a truth behind the current of environmental consequence.

Casey and Leo investigate a series of large-scale robberies. Not surprisingly, Hun and the Purple Dragon are to blame. However one of their hauls is a crate that should never have been opened!

Casey and the Turtles are practising their hide-and-seek skills at an abandoned warehouse complex. All the while, a strangely familiar figure watches them from the shadows - with an army of rats at his command!

A return to the Battle Nexus, a time to fight, is Mikey bound for glory once more?

On Halloween night, a mustachioed man visits April, expressing interest in a rather unusual item: a hideous six-armed idol. But the statue is no ordinary junkshop knickknack; it can be used to invoke a horde of imps that proceed to clean out the city and bring its spoils to their master, a criminal who calls himself The King of Thieves.

The Turtles learn first hand what it means to have a "Bad Shell Day" as calamity after calamity befalls them. This time the Turtles may not be able to save everybody...

When the President of the United States arrives in New York City, an invasion of what seems to be aliens attacks at the most inconvenient time. However, the Turtles investigate this "invasion" and find out that Bishop is behind it. The question is - why?

The Purple Dragons have evolved from a basic street gang to a smuggling syndicate that works throughout New York. Leonardo goes with Casey to put an end to Hun's plans. However, Casey and the recently angry Leo will have to control their own fury if they want to bring justice-- and not just veangeance-- out of this.

The Turtles help Nobody protect an old man when he witnesses Jengo, leader of the Turks, harming a Turks member. Can the Turtles and Nobody stop the Turks?

Usagi and Gen come to New York for a visit with the Turtles. Gen gets a little carried away by the bright lights of the big city and goes wandering off on his own. And if the modern world wasn't dangerous enough, an assassin from Usagi's world has followed Usagi and Gen. His target: Leonardo.

It is time for Leonardo to move on. Splinter sends Leo to a new sensei, or rather, a very old sensei. The journey is long and perilous. Can Leonardo look into himself and find the right answers to his questions? Can he even find the right questions?

While Leonardo is in Japan studying with the Ancient One, Karai as the new Shredder makes her attack. Will Leo return to New York? Will he find out what happened to his home and his family? And, have Splinter and Turtles really been destroyed?

Leonardo returns from Japan to find the lair in ruins and his family nowhere to be seen. As he investigates he finds that the Foot is back to full strength - with Karai as their leader. Since the Foot believe Leo to be dead, he puts all that he has learnt from the Anicent One into practice...

Bishop has too deal with the consequenses of his actions when people and animals all over New York starts mutating into horrible beasts after his "alien" invasion.

For several years April's uncle Augustus (aka Augie) has been missing.

When the power goes out in their lair, the Turtles and Splinter gather around the candlelight as Leonardo tells a story he learned from the Ancient One about Splinter's sensei, Hamato Yoshi.

Savanti Romero plots his revenge against the Turtles and Renet after they had him banished to the Cretaceous period. Using his magic to manipulate time, Romero lures the Turtles and Renet into a trap to obtain the time sceptre.

Having travelled to the past, the Turtles and Renet battle with Savanti Romero and his telepathically controlled dinosaurs as Savanti attempts to change the historic timeline by preventing the dinosaur extinction event.

With the outbreak-mutant situation the Turtles feel they have to deal with and Donatello sick his brothers leave him with Casey and April for care. But Donatello is not sick but in the last stages of a second mutation.

With Donatello sick the Turtles are desperate. So desperate that they decide to try and sneak into Bishops facility, where they realize they have to make a deal with the devil if they want to cure Donatello

To cure Donatello the Turtles made a deal with the devil aka Bishop. Now they have to retrive a pendant that is supposed to help Bishop in his research. The thing is that the pendant is in the heart of the Foot-building, and Karai won't just hand it over

After the Turtles were able to cure Donatello's mutation, a group of ninjas confronts the Turtles to tell them about a battle between good and evil that will decide the fate of the world.

The Turtles and Splinter find themselves in a futuristic world after accidentally being pulled through a time window.

The Turtles use new technology to create new weapons in an effort to escape the future.

A computer virus traps the Turtles inside the Dojo and they must fight for their lives.

Raph competes in a professional wrestling tournament, which is interrupted by a banned wrestler looking to prove himself.

Mikey is excited when a video game sequel is released; the Turtles need a guide to navigate the mall.

The mutant outbreak continues to spread throughout the sewers and subway tunnels while the Turtles try to contain the threat. Back at Area 51, Baxter Stockman prepares a new body for cerebral transfer despite warnings from Agent Bishop. When Stockman's body begins to show signs of rejection, he becomes delirious, which leads to a rampage against the person he believes to have caused all his problems, April O'Neil. In the end, seeing April as his mother due to his delusions, Stockman sacrifices himself by being drowned in the East River while handing her to the Turtles and Casey.

This episode was initially banned from airing on US television due to content issues.

The Turtles find out that Agent Bishop is alive in the year 2105.

Mikey brings Cody and his three friends to a horror film festival, where they meet Sh'okanabo face to face.

Mikey discovers that someone has taken his old superhero persona, Turtle Titan.

Cody and the Turtles search for a rare alloy on the moon; Inuwashi Gunjin goes there to make sure they do not return alive.

Jammerhead uses the Bodyjacker to take over Darius Dun's body to steal O'Neil Tech's secrets.

Sh'Okanabo implants gene seeds in Mikey, beginning his first test of introducing the seeds into the general population.

The Turtles' psychotic clones try to prove that they are bigger, badder and better than the Turtles.

The Turtles come across April and Casey's old future-history journal.

Viral sets a trap that digitizes and sucks the Turtles into a prototype game system, the Gaminator.

The Justice Force is expanding its ranks, and Mikey plans on joining up as Turtle Titan!, while Leo is more concerned in alerting them to the threat of the original Shredder. But when Nano reappears (thanks to Bishop and Baxter Stockman), everything quickly spirals out of control into a super hero vs. nanotech slugfest! But has Nano come back as friend or foe? And will the Turtle Titan and Leo survive long enough to find out?

Splinter announces that the Turtles will graduate to the next ninja rank, except Michelangelo.

Sh'Okanabo unleashes a time storm on New York, putting the Turtles in the middle of chaos.

Jammerhead escapes from prison and confronts the Turtles during a visit from Starlee's alien family.

An intergalactic mercenary enlists the Turtles' help in smuggling a ship full of humanitarian aid past Triceraton gangsters.

When Cody uncovers a secret weapons-manufacturing program, he and his uncle have a showdown over who will ultimately control the O'Neilltech empire.

Darius Dunn controls Turtle X to exact revenge on his nephew and the Turtles.

Triple Threat crashes a cross-country road race and steals all the cars.

The Turtles must rescue the president before he loses his head to a sinister figure from their past.

Dark Leo tries to prove himself by destroying the Turtles from within.

The leader of Inawashi Gunjin asks the turtles for help with a malicious alien.

When the entire population of Moonbase Bishop goes missing and the Turtles stage an assault on the base, they find a bigger Sh'Okanabo with an army of drones.

Torbin Zixx persuades the turtles to help him recover an experimental matter transmitter.

The Ninja Tribunal has called on eight acolytes to stop the coming evil. But first they have to train and be taught some important lessons that may mean the difference between life and death.

The Turtles begin training with the mysterious Ninja Tribunal, experimenting with new powers and weapons. After securing the first of the Tribunal’s Lost Artifacts, our heroes learn to their horror that the “great evil” they are destined to face is the long-imprisoned spirit of the one, true Shredder!

The Turtles train with the Ninja Tribunal to prevent the resurrection of the Shredder. But when Splinter and the Ancient One express serious doubts about trusting the Tribunal, the Turtles are confused. If they all agree on the goal, why the doubts? To explain the danger to the Turtles, Splinter and the Ancient One reveal the secret history of the Tribunal… including the true origin of the Shredder!

The Turtles and company continue their training under the Ninja Tribunal, learning to fight in the physical as well as mental and spiritual worlds. They’re going to need that knowledge, because the second artefact of the Shredder has been found, guarded by a horde of nasty Tengu demons that eat Acolytes for breakfast… literally!

Returning to the Tribunal Monastery with the second Shredder Artefact, things seem to be going well for our heroes when – deception! Old foes infiltrate the Monastery. With all three artefacts in the hands of evil, they plan a sneak attack on the Tribunal and their students with devastating results!

The original Shredder is resurrected by the Foot Mystics, whose first agenda is to destroy Karai – the “false Shredder.” And, while the Turtles are enemies of both Shredders, they realize that if the original Shredder wins, his goal of creating a world of destruction, devastation and chaos will be one huge step closer to reality. So, like it or not, they have to help Karai – even while she’s intent on killing them!

In their attempt to rescue Karai from the Foot Mystics and new Shredder, the Turtles wind up in a raging battle filled with magic and martial arts where they use everything the Tribunal taught them - but will it be enough to escape with Karai and their lives?

Weary after their first battle with the new Shredder, the Turtles doubt they can defeat him. To lift their spirits, Splinter and the Ancient One shares a tale of the Turtles’ toddler days. The story reveals that though the Turtles were small, they overcame impossible odds to defeat a phantom bent on reviving the Shredder, though they may not remember it.

Shredder begins to build a new dynasty in New York, transforming the whole island into a hellish nightmare.

The demonic Shredder has transformed New York City into a nightmare version of Feudal Japan and the rest of the modern world is next! But the Turtles have a plan, and if it takes allying themselves with some of their former enemies to bring the fight to the Shredder, so be it... because if they fail, all life as they known it will cease to exist.

With the help of their closest allies and most dangerous enemies alike, the Turtles have fought their way through a demonic version of New York to confront the Shredder once and for all! Now the Turtles must have everything they've got and have no choice but to focus their energy and become their very own mystic avatars...Dragons. This night, the Teenage Mutant Ninja Turtles will meet their destinies: Whether to live or die!

When the Time Window is repaired, the Turtles enter it to go home, but instead of ending up back at the lair they are sent on a harrowing trip through the past, present and future.

The Turtles are reunited with Casey and April; Casey is brainwashed by his new martial arts instructor.

The Turtles journey into cyberspace as Cybernauts on a mission to save as much of Master Splinter as they can find.

The engagement ring Casey and Raph pick out for April has powers that Hun and the Purple Dragons want.

While Don collects Splinter's data bits, his brothers are pulled into a war between the Foot and the Purple Dragons.

Serling, desperate to return to his own time, builds a makeshift Time Window.

Cyber Shredder releases a virus that wipes out the turtles' memories.

The Cyber Shredder creates a web portal that will allow him to travel from cyberspace into the real world.

The Turtles find more of Splinter's lost data bits, but they are embedded in the interface of Mikey's favorite online video game, SuperQuest.

Shredder makes the turtles believe they have left cyberspace, when they are really still there giving him important information about how to build a portal.

The Shredder hacks into a computer grid and reprograms every electronic device in New York.

The Justice Force asks Raph to join their ranks after he gets a cape that gives him super powers.

The Turtles and Master Splinter get ready for April and Casey's wedding.

The 2003 Ninja Turtles find their 1987 originals captured and held hostage by Hun. The 2003 Turtles defeat Hun, and the Purple Dragons and rescue their classic originals and escape to the modern Turtles' Lair. Meanwhile, the Technodrome from the 1987 TV series along with Shredder, Krang, Bebop and Rocksteady are together again and fight both versions of the turtles. Meanwhile the classic Shredder, transports the Utrom Shredder back from the ice asteroid that he was sent to after the "Exodus" episode. The classic Shredder and Krang had no idea that the modern Shredder would turn against them and sets out to erase the entire Ninja Turtle Universe, starting all the way back to the 1984 Mirage Comic series to where the Ninja Turtles are as of today, including the 1987 TV series Turtles, the live-action turtles, all the comic book turtles, and the modern TV series Turtles.

During a night of showing off their extreme sports gear, the Turtles are attacked by a monster from beneath the Earth. They trace the beast to a remote island where they uncover their old foe, Dr. Baxter Stockman, who has created vicious monstrosities to unleash on the unsuspecting public.

Starting March 7, 2009, a series of 13 shorts, called "chapters," ranging from 90 seconds to two minutes in length began airing on The CW4Kids during episodes of TMNT: Back to the Sewer and Chaotic: M'arrillian Invasion, as well as being streamed on the 4Kids website a week in advance of airing on television. They comprise a single story called "Mayhem from Mutant Island."[7] On March 27, 2010 the 13 shorts were re-aired edited together under just the "Mayhem from Mutant Island" title as a so called "new" episode of TMNT: Back to the Sewer.