| Title | Season | Episode # | First Aired |
|---|---|---|---|
| Third Time's A Charm | 3 | 105 | Saturday April 7, 2007 |
| Jewel of A Duel (1) | 3 | 106 | Saturday April 14, 2007 |
| Jewel of A Duel (2) | 3 | 107 | Saturday April 21, 2007 |
| Hanging with Axel (1) | 3 | 108 | Saturday May 5, 2007 |
| Hanging With Axel (2) | 3 | 109 | Saturday May 12, 2007 |
| Primal Instinct | 3 | 110 | Saturday May 26, 2007 |
| Head in the Clouds (1) | 3 | 111 | Saturday June 16, 2007 |
| Head in the Clouds (2) | 3 | 112 | Saturday June 23, 2007 |
| Win Mr. Stein's Duel (1) | 3 | 113 | Saturday July 14, 2007 |
| Win Mr. Stein's Duel (2) | 3 | 114 | Saturday July 21, 2007 |
| Trapper Keeper (1) | 3 | 115 | Saturday July 28, 2007 |
| Trapper Keeper (2) | 3 | 116 | Saturday August 4, 2007 |
| A Snake in the Grass (1) | 3 | 117 | Saturday September 1, 2007 |
| A Snake in the Grass (2) | 3 | 118 | Saturday September 8, 2007 |
| A Snake in the Grass (3) | 3 | 119 | Saturday September 15, 2007 |
| Inter-Dimension Detention | 3 | 120 | Saturday September 22, 2007 |
| Sub-Desert Duel | 3 | 121 | Saturday September 29, 2007 |
| Night of the Living Duelist | 3 | 122 | Saturday October 6, 2007 |
| School Ghoul Duels | 3 | 123 | Saturday October 13, 2007 |
| Triple Play (1) | 3 | 124 | Saturday October 20, 2007 |
| Triple Play (2) | 3 | 125 | Saturday November 3, 2007 |
| Return of the Sacred Beasts | 3 | 126 | Saturday November 10, 2007 |
| Breaking of the Sacred Seal! | 3 | 127 | Saturday January 19, 2008 |
| A Dimensional Duel | 3 | 128 | Saturday January 26, 2008 |
| Unleash the Dragon (1) | 3 | 129 | Saturday February 2, 2008 |
| Unleash the Dragon (2) | 3 | 130 | Saturday February 9, 2008 |
| All For One! | 3 | 131 | Saturday February 16, 2008 |
| A New World Order | 3 | 132 | Saturday February 23, 2008 |
| Friend or Fiend | 3 | 133 | Saturday March 1, 2008 |
| Dueling With the Dark Army | 3 | 134 | Saturday March 8, 2008 |
| Turning The Page (1) | 3 | 135 | Saturday March 15, 2008 |
| Turning The Page (2) | 3 | 136 | Saturday March 22, 2008 |
| The State of Syrus | 3 | 137 | Saturday March 29, 2008 |
| The Darkness Is Revealed | 3 | 138 | Saturday April 5, 2008 |
| A Sight Unseen (1) | 3 | 139 | Saturday April 12, 2008 |
| A Sight Unseen (2) | 3 | 140 | Saturday April 19, 2008 |
| What Lies Beneath (1) | 3 | 141 | Saturday April 26, 2008 |
| What Lies Beneath (2) | 3 | 142 | Saturday May 3, 2008 |
| What Lies Beneath (3) | 3 | 143 | Saturday May 10, 2008 |
| The Forbidden Ritual (1) | 3 | 144 | Saturday May 17, 2008 |
| The Forbidden Ritual (2) | 3 | 145 | Saturday May 24, 2008 |
| The Sealed Fusion | 3 | 146 | |
| The Clash of Fate! Cyber-Style VS the Gem Beasts! | 3 | 147 | |
| The Ultimate Dragon Showdown! Cyber End VS Rainbow Dark | 3 | 148 | |
| Clash of the Demon Gods! Mythic Demon VS Exodia! | 3 | 149 | |
| Summon Yubel! | 3 | 150 | |
| Neos VS The Advanced Crystal Beasts | 3 | 151 | |
| Activate Super Fusion! Rainbow Neos | 3 | 152 | |
| Confrontation of the Chosen Cards! Elemental Heroes VS Yubel! | 3 | 153 | |
| Supreme King Jaden Resurrected! | 3 | 154 | |
| 155 | 3 | 155 | |
| Jaden Revived!? A Brand New Journey! | 3 | 156 |