| Title | Season | Episode # | First Aired |
|---|---|---|---|
| The Immobilizer | 2 | 18 | Tuesday September 24, 1985 |
| The Insecticon Syndrome | 2 | 29 | Wednesday October 9, 1985 |
| The Key to Vector Sigma (1) | 2 | 55 | Monday November 25, 1985 |
| The Key to Vector Sigma (2) | 2 | 56 | Tuesday November 26, 1985 |
| The Killing Jar | 3 | 71 | Monday September 29, 1986 |
| The Master Builders | 2 | 28 | Tuesday October 8, 1985 |
| The Quintesson Journal | 3 | 86 | Tuesday November 11, 1986 |
| The Rebirth (1) | 4 | 96 | Monday November 9, 1987 |
| The Rebirth (2) | 4 | 97 | Tuesday November 10, 1987 |
| The Rebirth (3) | 4 | 98 | Wednesday November 11, 1987 |
| The Return of Optimus Prime (1) | 3 | 94 | Tuesday February 24, 1987 |
| The Return of Optimus Prime (2) | 3 | 95 | Tuesday March 3, 1987 |
| The Search for Alpha Trion | 2 | 48 | Tuesday November 12, 1985 |
| The Secret of Omega Supreme | 2 | 45 | Wednesday November 6, 1985 |
| The Ultimate Doom: Brainwash (1) | 1 | 8 | Saturday November 3, 1984 |
| The Ultimate Doom: Revival (3) | 1 | 10 | Saturday November 17, 1984 |
| The Ultimate Doom: Search (2) | 1 | 9 | Saturday November 10, 1984 |
| The Ultimate Weapon | 3 | 85 | Monday November 10, 1986 |
| Thief in the Night | 3 | 75 | Monday October 6, 1986 |
| Traitor | 2 | 21 | Friday September 27, 1985 |
| Trans-Europe Express | 2 | 59 | Monday December 23, 1985 |
| Transport to Oblivion | 1 | 4 | Saturday October 6, 1984 |
| Triple Take-Over | 2 | 52 | Tuesday November 19, 1985 |
| War Dawn | 2 | 60 | Wednesday December 25, 1985 |
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