The year is U.C. 0096. Three years have passed since the end of the Second Neo Zeon War. It is said that the Vist Foundation manipulates the Earth Federation and Anaheim Electronics from behind the scenes. Hoping to create a new world, the Foundation attempts to hand over a certain secret to the Neo Zeon remnants known as the Sleeves. This will mean the opening of Laplaces Box, which holds a great secret tied to the origins of the Universal Century. The exchange between the Vist Foundation and the Sleeves is to take place at the manufacturing colony Industrial 7. This is the home of the student Banagher Links, who rescues a girl he sees falling through the colony's zero gravity area. The girl gives her name as Audrey Burne and says she wants to prevent a war, spurring Banagher to step into the conflict surrounding Laplaces Box, almost as if he is drawn in by his own bloodline.
The negotiations between Cardeas and Zinnerman break down as a mobile suit battle begins inside the colony, claiming the lives of Banagher's classmates.
Daguza has taken Mineva (or Audrey) hostage, but Frontal rejects his demand for a ceasefire and declares that he will sink the Nahel Argama. In order to save Audrey, Banagher sorties in the Unicorn Gundam.
Evading Marida, who has come to take Audrey back to the Garencieres, Banagher finally manages to get Audrey to the mansion in Magallanica where she hopes to meet with Cardeas, the current head of the Vist Foundation.
As they cross the desert, Banagher learns of Zinnerman's tragic past, and how his family were killed by the Federation Forces. He decides to head for the Torrington base, where new information will be disclosed.
After saving Banagher and the Unicorn Gundam, which were falling toward Earth, the Garencieres crash-lands in the Western Sahara. Meanwhile, Zeon remnants who have been hiding on Earth launch an attack on the Earth Federation capital.
Together with the ECOAS special forces group, the Nahel Argama of the Earth Federation Forces' Londo Bell unit begins an operation to recapture Banagher and the Unicorn Gundam.
After repulsing the Kshatriya, Banagher loses consciousness, and along with the Unicorn Gundam, he is retrieved by the Earth Federation Forces warship Nahel Argama. The ship has also rescued Audrey, as well as Takuya and Micott.
The Zeon remnants have begun a battle at the Torrington base in Australia, where a colony once fell, in order to obtain the coordinates to the Box that will be revealed there.
Removing his mask and revealing his face, Frontal requests the cooperation of Banagher, who can activate the Unicorn Gundam. When Banagher refuses, Angelo berates him for killing one of his subordinates.
Marida, now a prisoner of the Federation, tells Banagher to keep on saying, "Even so..." She says that he has the power to awaken another system that sleeps within the Unicorn Gundam.
The Unicorn Gundam reaches the wreckage of Laplace, and the La+ Program's seal is broken. A speech given 96 years earlier by Ricardo Marcenas, the first prime minister of the Earth Federation government, begins playing back.
Attacked by the Banshee, Banagher and the Unicorn Gundam are captured and brought aboard the Ra Cailum. Riddhe is surprised to learn that Alberto is Banagher's older half-brother.
On the day of the ceremony marking the transition from the A.D. to the Universal Century calendar, the space station Laplace, official residence of the Earth Federation prime minister, is destroyed by a terrorist bombing.
Now on the run from the Federation Forces, the Nahel Argama has taken the desperate step of forming a joint front with the Sleeves.
The negotiations between Cardeas and Zinnerman break down as a mobile suit battle begins inside the colony, claiming the lives of Banagher's classmates.
Daguza has taken Mineva (or Audrey) hostage, but Frontal rejects his demand for a ceasefire and declares that he will sink the Nahel Argama. In order to save Audrey, Banagher sorties in the Unicorn Gundam.
Evading Marida, who has come to take Audrey back to the Garencieres, Banagher finally manages to get Audrey to the mansion in Magallanica where she hopes to meet with Cardeas, the current head of the Vist Foundation.
As they cross the desert, Banagher learns of Zinnerman's tragic past, and how his family were killed by the Federation Forces. He decides to head for the Torrington base, where new information will be disclosed.
After saving Banagher and the Unicorn Gundam, which were falling toward Earth, the Garencieres crash-lands in the Western Sahara. Meanwhile, Zeon remnants who have been hiding on Earth launch an attack on the Earth Federation capital.
Together with the ECOAS special forces group, the Nahel Argama of the Earth Federation Forces' Londo Bell unit begins an operation to recapture Banagher and the Unicorn Gundam.
After repulsing the Kshatriya, Banagher loses consciousness, and along with the Unicorn Gundam, he is retrieved by the Earth Federation Forces warship Nahel Argama. The ship has also rescued Audrey, as well as Takuya and Micott.
The Zeon remnants have begun a battle at the Torrington base in Australia, where a colony once fell, in order to obtain the coordinates to the Box that will be revealed there.
Removing his mask and revealing his face, Frontal requests the cooperation of Banagher, who can activate the Unicorn Gundam. When Banagher refuses, Angelo berates him for killing one of his subordinates.
Marida, now a prisoner of the Federation, tells Banagher to keep on saying, "Even so..." She says that he has the power to awaken another system that sleeps within the Unicorn Gundam.
The Unicorn Gundam reaches the wreckage of Laplace, and the La+ Program's seal is broken. A speech given 96 years earlier by Ricardo Marcenas, the first prime minister of the Earth Federation government, begins playing back.