| Title | Season | Episode # | First Aired |
|---|---|---|---|
| My Brother, the Bad Guy | 5 | 1 | Saturday September 14, 1991 |
| Michaelangelo Meets Mondo Gecko | 5 | 2 | Saturday September 14, 1991 |
| Enter: Mutagen Man | 5 | 3 | Saturday September 21, 1991 |
| Donatello's Badd Time | 5 | 4 | Saturday September 21, 1991 |
| Michaelangelo Meets Bugman Again | 5 | 5 | Saturday September 28, 1991 |
| Muckman Messes Up | 5 | 6 | Saturday September 28, 1991 |
| Napoleon Bonafrog: Colossus of the Swamps | 5 | 7 | Saturday October 5, 1991 |
| Raphael Versus the Volcano | 5 | 8 | Saturday October 5, 1991 |
| Landlord of the Flies | 5 | 9 | Saturday October 19, 1991 |
| Donatello's Duplicate | 5 | 10 | Saturday October 19, 1991 |
| The Ice Creature Cometh | 5 | 11 | Saturday October 26, 1991 |
| Leonardo Cuts Loose | 5 | 12 | Saturday October 26, 1991 |
| Pirate Radio | 5 | 13 | Saturday November 2, 1991 |
| Raphael, Turtle of a Thousand Faces | 5 | 14 | Saturday November 2, 1991 |
| Leonardo, The Renaissance Turtle | 5 | 15 | Wednesday October 9, 1991 |
| Zach and the Alien Invaders | 5 | 16 | Saturday November 9, 1991 |
| Welcome Back, Polarisoids | 5 | 17 | Saturday November 16, 1991 |
| Michaelangelo, the Sacred Turtle | 5 | 18 | Saturday November 16, 1991 |