The story follows the plot of the Gundam Wing TV series very closely, incorporating plot elements introduced in Gundam Wing: Episode Zero and the concurrently running novel, Frozen Teardrop. Therefore, the manga acts as a retelling of the original animated TV series with all backstory and sidestory plot elements incorporated, as the 'complete' story.
- Episode.01: OPERATION METEOR (PART.01)
- The year is After Colony 195, and the space colonies began rising up against the oppressive United Earth Sphere Alliance. On the 6th of April, a group of Alliance Space Leos surround a rebel hideout in the L2 Colony Cluster. However, an unknown mobile suit emerges from the hideout and easily destroys the Leos. On Earth, Lady Une, an officer of the Organization of the Zodiac, reports the appearance of the unknown mobile suit to Treize Khushrenada, OZ's leader. Treize realizes that the mobile suit is a Gundam, created to carry out Operation Meteor. He then relays the information to Zechs Merquise, an OZ ace pilot. Back in space, Duo Maxwell, the Gundam's pilot and Professor G, the Gundam's creator, are being pursued by an OZ fleet from the Space Fortress Bulge. Unable to shake their pursuers, Professor G decides that they have no choice but to enlist the help of the Barton Foundation, and plots a course to L2-V08744, Duo's home colony. However, Duo is angered by this, saying that he'd rather die than take part in a massacre.
- Episode.02: OPERATION METEOR (PART.02)
- Duo attempts to destroy his Gundam to avoid taking part in a massacre, but is prevented by Professor G who then suggests Duo take the mobile suit to Earth and carry out Operation Meteor his own way. At the same time, on April 7, AC 195, four other Gundams are sent to Earth as well; each of their pilots also intending to carry out their own versions of Operation Meteor. Most of the Gundams make it to Earth successfully, but the winged unit sent from the L1 Colony Cluster is intercepted during its descent by Zechs' assault carrier. The Gundam destroys Zechs' support MS with ease, but Zechs manages to grapple the Gundam with his Mk. IV Leo "Greif" and sink it into the Pacific Ocean. Meanwhile, the other four Gundams make their presence on Earth known as they each begin to attack OZ facilities and squadrons.
- Episode.03: Wings of a Fallen Angel (PART.01)
- Episode.04: Wings of a Fallen Angel (PART.02)
- Heero is held captive at an Alliance military hospital, but Duo helps him escape and later recovers both of their Gundams from the sea.
- Episode.05: Tallgeese - Miracle Worker (PART.01)
- Episode.06: Tallgeese - Miracle Worker (PART.02-1)
- As Heero begins to repair his Gundam, he receives orders to destroy an enemy carrier transporting Gundanium Alloy. Back at the Corsica Base, Trowa continues his assault until his Gundam runs out of ammunition. However, he is saved by the timely arrival of the Gundam pilot Quatre Winner and his support MS team, the Maganac Corps.
- Episode.07: Tallgeese - Miracle Worker (PART.02-2)
- Episode.08: Tallgeese - Miracle Worker (PART.03-1)
- Episode.09: Tallgeese - Miracle Worker (PART.03-2)
- Trowa and Quatre's Gundams battle each other, but the two pilots decide that they shouldn't be enemies. Meanwhile, Heero finishes repairing his Gundam by stealing parts from Duo's, and then successfully carries out his latest mission; retrieving the OZ carrier's Gundanium Alloy for his own use in the process. After being informed of the lost Gundanium, Treize puts his plans on hold for building his own Gundam and decides to focus on the deployment of OZ's new Taurus units.
- Episode.10: The Victoria Nightmare (PART.01)
- Episode.11: The Victoria Nightmare (PART.02)
- Episode.12: A Banquet for the Pleiades (PART.01)
- Episode.13: A Banquet for the Pleiades (PART.02)
- The Gundam pilots are each ordered to destroy OZ's Taurus units, which they are told will be launched at the New Edwards Base where top OZ officials are gathering. However, this meeting is really a gathering of the Alliance's pacifist leaders, which Relena and her father Vice-Minister Darlian also attend. This dummy operation is Treize's scheme to manipulate the Gundams into assisting his own plans for conquering Earth.
- Episode.14: A Banquet for the Pleiades (PART.03)
- Episode.15: A Banquet for the Pleiades (PART.04)
- Episode.16: A Banquet for the Pleiades (PART.05)
- Episode.17: A Banquet for the Pleiades (PART.06)
- Episode.18: A Banquet for the Pleiades (PART.07-1)
- Episode.19: A Banquet for the Pleiades (PART.07-2)
- Trowa, Quatre and Wufei begin their assault on the New Edwards Base, but soon learn they've been deceived. As the Alliance pacifists attempt to flee the base, however, Heero's Gundam arrives and swiftly destroys their shuttle. Heero is then informed by Duo of his grave mistake, and he realizes that Operation Meteor has now become a complete failure. His actions also inadvertently cause the death of Vice-Minister Darlian, who reveals to Relena with his dying words her true identity. At the same time, OZ begins a worldwide takeover of all Alliance bases. Zechs uses his new Tallgeese MS to reclaim his homeland, the Sanc Kingdom. Wufei attempts to kill Treize, but is defeated in a sword duel. However, Treize allows him to escape, which leaves Wufei in disgrace. When Heero learns that New Edwards is targeted for destruction by an orbiting missile satellite, he uses his Gundam to intercept and destroy the missile; saving his fellow pilots, Relena and others still at the base.
- Episode.20: Disgrace at Baikal (PART.01)
- Episode.21: Disgrace at Baikal (PART.02)
- Episode.22: Disgrace at Baikal (PART.03)
- Episode.23: Disgrace at Baikal (PART.04)
- Episode.24: Disgrace at Baikal (PART.05)
- Episode.25: Disgrace at Baikal (PART.06)
- OZ spreads word that the real Taurus units will be launched at their Lake Baikal, Siberia base; with the intention of luring the Gundams into a trap. Duo, Quatre and the Maganac Corps attack the base's land transportation route, which is revealed to be a decoy, while Trowa and Heero attack the air route. During the assault, Zechs uses the Tallgeese to battle Heero's Gundam. However, Lady Une sets her trap in motion when she threatens to use the recently-captured Space Fortress Bulge to destroy the colonies unless the Gundam pilots surrender (a tactic that disgusts both Zechs and Noin). In response to this threat, Heero's mentor Doctor J agrees to surrender, but refuses to hand over the Gundam he created. Understanding Doctor J's implied order, Heero activates his Gundam's self-detonation device; destroying the mobile suit and seemingly killing himself. Trowa gathers Heero's motionless form, and tells Duo and Quatre that they must all retreat.
- Episode.26: The Lament for Icarus: War of Extermination (PART.01)
- Episode.27: The Lament for Icarus: War of Extermination (PART.02)
- Episode.28: The Lament for Icarus: Duel (PART.01)
- Episode.29: The Lament for Icarus: Duel (PART.02)
- Episode.30: The Lament for Icarus: Duel (PART.03)
- Episode.31: The Lament for Icarus: Flight into Hopelessness (PART.01)
- While the Gundam pilots are forced into hiding with the colonies held hostage, Zechs secretly rebuilds Heero's Gundam for an intended re-match.
- Episode.32: The Lament for Icarus: Flight into Hopelessness (PART.02)
- Episode.33: The Lament for Icarus: Flight into Hopelessness (PART.03)
- Episode.34: The Afterglow of Zero - Attack (PART.01)
- Episode.35: The Afterglow of Zero - Attack (PART.02)
- Episode.36: The Afterglow of Zero - Attack (PART.03)
- Episode.37: The Afterglow of Zero - Showdown
- Episode.38: The Afterglow of Zero - Defeat (PART.01)
- Episode.39: The Afterglow of Zero - Defeat (PART.02)
- Episode.40: The Afterglow of Zero - Counterattack (PART.01)
- Episode.41: The Afterglow of Zero - Counterattack (PART.02)
- Episode.42: The Afterglow of Zero - Indecision (PART.01)
- Episode.43: The Afterglow of Zero - Indecision (PART.02)
- Episode.44: The Afterglow of Zero - Boundary (PART.01)
- Episode.45: The Afterglow of Zero - Boundary (PART.02)
- Episode.46: The Reversed Death - Dazzlement
- Episode.47: The Reversed Death - Pride
- Episode.48: The Reversed Death - Reversal
- Episode.49: The Reversed Death - Approaching From Far Away
- Episode.50: Chains of Mobius - Lance and Shield
- Episode.51: Chains of Mobius - The Glass Kingdom
- Episode.52: Chains of Mobius - The Next Machine <Epyon> (PART.01)
- Episode.53: Chains of Mobius - The Next Machine <Epyon> (PART.02)
- Episode.54: Chains of Mobius - The Next Machine <Epyon> (PART.03)
- Episode.55: Chains of Mobius - The Next Machine <Epyon> (PART.04)
- Episode.56: Fleeting Peace - Glass Kingdom
- Episode.57: Fleeting Peace - Fleeting Collapse
- Episode.58: Fleeting Peace - Path to Destruction (PART.01)
- Episode.59: Fleeting Peace - Path to Destruction (PART.02)
- Episode.60: The End of Peace - A Proposition from Epyon
- Episode.61: The End of Peace - Zero's Rebuttal
- Episode.62: The End of Peace - Choice to Return (PART.01)
- Episode.63: The End of Peace - Choice to Return (PART.02)
- Episode.64: The Future of Choice - Assassination of a Queen
- Episode.65: The Artemis Revolution
- Episode.66: The Fall of Bulge (PART.01)
- Episode.67: The Fall of Bulge (PART.02)
- Episode.68: Takeoff into Confusion - Return (PART.01)
- Episode.69: Takeoff into Confusion - Return (PART.02)
- Episode.70: Takeoff into Confusion - Gathering (PART.01)
- Episode.71: Takeoff into Confusion - Gathering (PART.02)
- Episode.72: Takeoff into Confusion - Libra
- Episode.73: Takeoff into Confusion - Decision (PART.01)
- Episode.74: Takeoff into Confusion - Decision (PART.02)
- Episode.75: Eve Wars I - Go Forth, Gundam Team!!
- Episode.76: Eve Wars II - Zero Mode
- Episode.77: Eve Wars III - Go Forth, Gundam Team!!
- Episode.78: Eve Wars IV - (PART.01)
- Episode.79: Eve Wars IV - Decision (PART.02)
As the manga is a retelling of the main series, please see After Colony list of characters for a character list
Please see After Colony Mobile Weapons for a list of Mobile Suits in the series.
- The manga began running concurrently with Frozen Teardrop as part of the 15th anniversary celebration of Gundam Wing.
- The manga replaces all of Kunio Okawara's Gundam designs from the anime series with the Endless Waltz redesigns by Hajime Katoki (including the original five). In addition, some of OZ's mobile suits have minorly altered appearances and names.
- Vol.1 ISBN 978-4-04-715676-0
- Vol.2 ISBN 978-4-04-715815-3
- Vol.3 ISBN 978-4-04-120289-0
- Vol.4 ISBN 978-4-04-120560-0
- Vol.5 ISBN 978-4-04-120738-3
- Vol.6 ISBN 978-4-04-120953-0
- Vol.7 ISBN 978-4-04-101909-2
- Vol.8 ISBN 978-4-04-102460-7
- Vol.9 ISBN 978-4-04-103137-7
- Vol.10 ISBN 978-4-04-103776-8
- Vol.11 ISBN 978-4-04-104403-2
- Vol.12 ISBN 978-4-04-105344-7
- Vol.13 ISBN 978-4-04-106191-6
- Vol.14 ISBN 978-4-04-106481-8
- Vol.1 ISBN 978-1-94-505434-1
- Vol.2 ISBN 978-1-94-505435-8
- Vol.3 ISBN 978-1-94-505436-5
- Vol.4 ISBN 978-1-94-505437-2
- Vol.5 ISBN 978-1-94-505438-9
- Vol.6 ISBN 978-1-94-505439-6
- Vol.7 ISBN 978-1-94-719407-6
- Vol.8 ISBN 978-1-94-719416-8