25. The Place of Sin
Shinn rushes an injured Stella aboard the Minerva. Once aboard, he learns startling information about Stella. Elsewhere, Lacus decides to go to PLANT and scope the situation out.
Mobile Suit Gundam SEED
Mobile Suit Gundam SEED Destiny
In the year C.E.70, the conflict between the Z.A.F.T. Forces and the O.M.N.I. Enforcer has erupted into armed warfare of the highest intensity in the wake of the "Bloody Valentine" catastrophe. An armistice is signed following the Second Battle of Yakin Deyue, which saw massive casualties, but no armistice could extinguish the hostilities that existed between the Naturals and the Coordinators. Shinn Asuka finds himself caught up in the O.M.N.I. Enforcers' Orb Operation, and sees his parents and sister killed before his very eyes by the fighting.
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26. The Promise
In Space, Lacus & Andy reunite with the Eternal and its crew. Lunamaria reports her findings from Athrun's rende-vous with Kira to Talia as Stella's condition worsens. Elsewhere, Miriallia rejoins the Archangel and decodes a message that informs the group of an upcoming battle between Minerva and Orb/Phantom Pain.
27. Unfulfilled Feelings
All hell breaks loose in a three-way battle between the Minerva, Orb/Earth fleets and the Archangel.
28. Survivors and Sacrifices
As Dullindal plays a lonely game of chess, he reflects upon the past and the philosophy of his dear friend, Rau Le Crueset.
29. Fates
In order to save Stella's life, Shinn brings her back to Neo.
30. A Fleeting Dream
Shinn and Rey both receive pardons for freeing Stella, a Prisoner of War, much to Talia and Athrun's surprise. Meanwhile, a revitalized Stella pilots the EA's new heavy assault MS, the GFAS-X1 Destroy, and wipes out several villages on the Russian front.
31. The Endless Night
The Minerva and Archangel work to stop the Destroy and its destructive rampage through Europe. Shinn is shocked to learn that Stella is the unit's pilot.
32. Stella
Shinn, swearing vengeance on the Freedom, studies up on it with hopes of defeating the MS that killed Stella. Meanwhile, the Earth Sphere is thrown into chaos as Durandal announces to the world that Logos is behind the war and this never-ending hatred.
33. The World Revealed
As the Archangel makes its way towards Orb, it is attacked by the Minerva. Having studied up on the Freedom, Shinn prepares to destroy it.
34. Nightmare
As the Archangel crew scrambles to stabilize their ship, Cagalli rescues an incapacitated Kira. Aboard the Minerva, Shinn gloats to Athrun about his victory. Dullindal decides to make his way toward Earth to present two new mobile suits to Athrun and Shinn...
35. Eve of Chaos
After his less-than-warm reception to Dullindal, the Destiny and the Legend, Dullindal decides that Athrun will only hinder his goals. With Special Ops soldiers after his life, Athrun decides to, once again, leave ZAFT.
36. Athrun on the Run
Shinn is reluctant to shoot down Athrun's Gouf. However, Rey manages to relieve him of his doubts and convinces him to shoot down Athrun and Meyrin!
37. Thunder in the Dark
ZAFT leads an offensive on the EAF's Heaven's Base in hopes of defeating Logos.
38. A New Flag
After a trip to the Mendel Colony, Lacus and the Eternal's location is discovered by ZAFT. Just when it looks bleak for the Eternal, Kira comes to the rescue...
39. Kira of the Skies
After Zaft's ultimatum requesting Djibril, Yuuna gives the obvious lie of Djibril not being in Orb in a public announcement. Following the announcement, Zaft begins its invasion of Orb. Cagalli is given her father's will: the mobile suit Orb-01 Akatsuki, arrests Yuuna and reforms Orb's defense against Zaft. Later, the Minerva arrives and Destiny launches to confront the Akatsuki...
40. Legacy of Gold
Athrun and Kira share their thoughts of what has happened during the war.
41. Refrain
Athrun and Kira recall the past events from their perspective and explain why they follow the paths they have chosen.
42. Freedom and Justice
As the attack on Orb continues, Cagalli faces off against Shinn. She is saved by the timely arrival of Kira who descended from space with Lacus. Shinn is forced to retreat to resupply. While Kira continues to destroy ZAFT forces, Lacus shows Athrun the ZGMF-X19A Infinite Justice and gives him the decision to choose whether he wishes to stay away from the battle or become a soldier again and fight for what he believes in.
43. A Call for Counterattack
Athrun intervenes in the battle between Kira, Shinn, and Rey, which shocks Shinn who believed that he had killed Athrun previously. Yuna is crushed by a GOUF Ignited when he tried to escape while Djibril successfully escapes to the Moon aboard an orbital shuttle. With the ZAFT flagship destroyed, Captain Gladys takes command and orders a temporary retreat. After the battle, Cagalli broadcasts a global announcement about the war with Logos but she is interrupted by Meer, who is in turn interrupted by the real Lacus.
44. Lacus Times Two
The real Lacus on television states that there is someone who has the same face, voice and name as herself in the PLANTs. She also states that people should find out more about Chairman Durandal's actions before believing in his lies. Djibril arrives at the Daedalus Lunar Base, where he fires the Orbital All-Aspect Tactical Cannon, Requiem, at the PLANT capital, Aprilius. The attack on Aprilius fails, but Januarius One through Four is hit, and they collide into December Seven and Eight causing them to collapse also. The Minerva returns to space.
45. Prelude to Revolution
After the attack on the PLANTs by the Requiem, the Orb forces begin their preparations to leave Earth. ZAFT begins their assault on Requiem and the Minerva is sent to the front lines. Lunamaria is given the task of destroying Requiem's controls while the Destiny, the Legend, and Minerva divert the enemy's attention away from her. The Destiny and the Impulse destroy Requiem's controls. Djibril attempts an escape on the Girty Lue, but Rey discovers him and destroys the Girty Lue. Cagalli parts with the crew of the Archangel and watches the ship leave for the Moon.
46. The Song of Truth
While gathering intelligence under the guise of a shopping trip at Copernicus City, Lacus receives a message from Meer, who is afraid of being killed. Though Athrun and Meyrin insists it is a trap, Lacus decides to meet Meer anyway. The would-be assassins are killed, but Meer is mortally wounded.
47. Meer
A funeral is held for Meer on the Archangel. Athrun, Kira, Lacus, and Meyrin read Meer's diary and learn why she had aided Durandal.
48. To a New World
Chairman Durandal calls for the implementation of the "Destiny Plan", which is supposed to decide the fate of each individual on a genetic level. Only the Orb Union, the Kingdom of Scandinavia, and the Atlantic Federation reject this plan. ZAFT repairs Requiem and fires it at the Earth Alliance lunar base of Arzachel, killing the President of the Atlantic Federation. Terminal forces head towards Relay Station 1 of Requiem.