| Paramecia Coloniex (12 variants) | 70 |
| Pain 101 (12 variants) | 69 |
| Oroku Saki, Shredder Rising (12 variants) | 68 |
| Ninja Teen (12 variants) | 67 |
| Madame Null, Power Broker (12 variants) | 66 |
| Lord Dregg, Insect Invader (12 variants) | 65 |
| Insectoid Exterminator (12 variants) | 64 |
| Foot Mystic (12 variants) | 63 |
| Dream Beavers (12 variants) | 62 |
| Death in the Family (12 variants) | 61 |
| The Cloning of Shredder (12 variants) | 60 |
| Bebop, Warthog Warrior (12 variants) | 59 |
| Armaggon, Future Shark (12 variants) | 58 |
| Anchovy & Banana Pizza (12 variants) | 57 |
| Utrom Scientists (12 variants) | 56 |
| Turtles in Time (12 variants) | 55 |
| Stockman, Mad Fly-entist (12 variants) | 54 |
| Sewer-veillance Cam (12 variants) | 53 |
| Return to the Sewers (12 variants) | 52 |
| Retro-Mutation (12 variants) | 51 |
| Renet, Temporal Apprentice (12 variants) | 50 |
| Ray Fillet, Man Ray (12 variants) | 49 |
| Ooze Spill (12 variants) | 48 |
| Negate (12 variants) | 47 |
| Mondo Gecko (12 variants) | 46 |
| Mind Transfer Protocol (12 variants) | 45 |
| Metalhead (12 variants) | 44 |
| Krang, Master Mind (12 variants) | 43 |
| Kitsune's Technique (12 variants) | 42 |
| Kitsune, Dragon's Daughter (12 variants) | 41 |
| Fugitive Droid (12 variants) | 40 |
| Donatello's Technique (12 variants) | 39 |
| Donatello, Way with Machines (12 variants) | 38 |
| Donatello, Turtle Techie (12 variants) | 37 |
| Donatello, Mutant Mechanic (12 variants) | 36 |
| Donatello, Gadget Master (12 variants) | 35 |
| Does Machines (12 variants) | 34 |
| Crustacean Commando (12 variants) | 33 |
| Buzz Bots (12 variants) | 32 |
| Bespoke Bō (12 variants) | 31 |
| April, Reporter of the Weird (12 variants) | 30 |
| April O'Neil, Hacktivist (12 variants) | 29 |
| Uneasy Alliance (12 variants) | 28 |
| Turtles Forever (12 variants) | 27 |
| Turncoat Kunoichi (12 variants) | 26 |
| Triceraton Commander (12 variants) | 25 |
| Sally Pride, Lioness Leader (12 variants) | 24 |
| Quintessential Katana (12 variants) | 23 |
| Prehistoric Pet (12 variants) | 22 |
| Mighty Mutanimals (12 variants) | 21 |