In this clip show, Global recounts the events of the story up to this point.

Quazmin kidnaps Minmay and Kaifun, and holds them for ransom. Hikaru and his squadron prepare a rescue mission.

A special clip episode where following a severe injury sustained in the previous episode, an incapacitated Hikaru lies in a hospital bed inside the Macross, dreaming about the previous events and his developing relationship with Misa and his ill-fated friendship with Minmay.

As some of the giant Zentradi begin to rebel over their new way of life with the humans, Minmay's fame begins to slip away. Wandering around from tour to tour of the local towns, Minmay contemplates at what could have been a serious relationship with the now distant Hikaru.

The love triangle between Hikaru, Misa and Minmay intensifies when he decides to skip out on a picnic with the commander, so he could have lunch with the pop idol instead. Giant Zentradi rebellions begin heating up, making matters worse for the humans.

Two years have passed after the final battle with Boddole Zer. The Macross is now a relic of the conflict known as Space War I, and sits in a large lake in barren Alaska. Earth is still a desolate wasteland, and small towns and forests are located miles around Macross City. The allied Zentradi fleets, along with the citizens from the Macross, maintain a nervous peace. The work to rebuild Earth by both sides is in full swing. Hikaru looks back on the times spent with Roy Fokker for advice on what do about his feelings for both Misa and Minmay.

Max, Milia, and their baby daughter, Komilia Maria, play a crucial role in the capture of a Zentradi satellite factory - the source of the overtechnology of which the aliens rely on.

Exsedol and Global gather the crew of the Macross to reveal the origin of the nomadic Zentradi at last. Meanwhile, Quamzin's forces attempt to steal a macronization chamber.

As Misa begins to realize she may be losing Hikaru to Minmay, Claudia helps her friend by recounting her early experiences with Roy Fokker.

The battle within the city comes to a close, with the surviving Zentradi defectors coming to terms with the destruction they caused. Along with Rori, Konda and Warera, the defectors are all given asylum within the Macross. Misa prepares to travel back to Earth to the UN Headquarters, whilst Hikaru begins to further contemplate his feelings for her.

Zentradi commander Britai Kridanik and his archivist, Exsedol Folmo, begin suspecting that the humans (or 'miclones') are the long-lost 'Protoculture' and send attack waves to test their theory. During a Zentradi attack, Global orders the Macross to "reconfigure" itself to combat mode in order to fend them off. However, the move proves disastrous for the unsuspecting civilians and infrastructure. Roy and Minmay convince Hikaru to join the UN Spacy fleet on the Macross so he could continue flying.

A TV station is launched on the Macross, and to celebrate, the first ever 'Miss Macross' beauty pageant takes place. Minmay enters, but by doing so she ends up missing dinner with Hikaru on the same night. A Zentradi spy ship approaches the Macross and with Max and Kakizaki on leave, Hikaru intercepts it alone.

The crew of the Macross are informed to not let anyone, including civilians, leave the ship, so as to keep the truth of the Zentradi's existence from causing widespread panic. The civilians within the Macross become increasingly unruly and violent toward the military personnel and crew members. Meanwhile, Quamzin returns, breaking orders and attacking the Macross while it sits in the Atlantic ocean.

Zentradi soldiers - having experienced and enjoyed some elements of human culture brought back by the three spies - attempt to defect to the Macross. A Daedalus Attack on Britai's ship allows them to pour through. During a concert by Minmay, a confusing three-way battle ensues inside the ship, with Zentradi refugees against Quamzin's forces, and the unwitting UN Spacy on the other side.

It's Christmas Eve, and Minmay's life begins to spiral into depression forcing her to seek Hikaru, which further isolates Misa. Quazmin's forces attack Onogi City to capture a reaction engine power condenser. Max and Milia's squadron is ambushed as they intercept, and Milia faces Laplamiz during the showdown.

As Minmay celebrates her birthday, Hikaru begins to wonder about his relationship with Minmay and emerging feelings for Misa. Hikaru is promoted and has Maximilian Jenius and Hayao Kakizaki assigned as his wingmen. Quamzin mounts another strike against the Macross whilst Hikaru wonders if he'll celebrate Minmay's birthday in time.

Rori, Konda and Warera - three Zentradi spies who mounted the spy plane in the previous episode - report to Britai and Exsedol on their findings. The Earth refuses to aid the Macross after contact is made for the first time in months. Meanwhile, Quamzin disobeys orders and attacks the Macross radar array, forcing the crew of the ship to send a recon plane to guide them away from the Zentradi.

With Earth only two days away by full speed, Global decides to ram the Macross through a Zentradi blockade. Meanwhile, Rori, Konda and Warera begin to explore human culture up close in micronized form.

Whilst Misa and Global travel to the Alaskan headquarters of the new UN, Hikaru escorts Minmay to Japan so that she could visit her parents. Lynn Kaifun, a relative of Minmay, joins the Macross to see his parents and protect Minmay.

After the catastrophic events in the previous encounter with the Zentradi, the UN orders the Macross to leave Earth in order to give the UN Spacy more time to formulate a defense plan against the aliens. Returning once more to Britai's ship, the macronized Zentradi spies bring back 'samples' of culture to their dumbfounded comrades.

The story begins in 1999: a giant alien spacecraft crash-lands on South Atalia Island. Humanity proceeds to attempt to rebuild this marvel, but political conflicts centered around the Macross - coupled with proposals for a one-world government - result in a global war. After 10 years, the 'Unification Wars' are finally over, the new United Nations government is in power, with the UN Spacy as their military arm. It's 2009: The work on the Macross is now complete. On the day of launching ceremony, its main cannon fires on its own, destroying an alien spacecraft in orbit. This automatic action marks the beginning of the war between the humans and Zentraedi, a race of humanoid warriors of gigantic size.

With the fold systems now vanished, Captain Global and his crew come to a realization that the Macross must make a long journey back to Earth. The civilians from South Atalia Island - along with their shops and homes - are brought onto the ship. Meanwhile, Hikaru and Minmay are trapped within the confines of the Macross. Hikaru learns much about Minmay and begins a new friendship with her.

Milia is now aboard the Macross as a spy and marvels at human culture. The premiere of Minmay's film Shao Pi Long (Little White Dragon) takes place. A Zentradi attack prompts another transformation to combat mode, and Hikaru and Misa end up being trapped within the walls of the ship, where they end up learning more about each other. Milia continues to search for the miclone pilot who defeated her.

Max has a chance encounter with Milia in a video game arcade, and proceeds to defeating her a second time during a game. They arrange to have a date in the park later, where Milia secretly plans to destroy him. Misa is escorted back to Earth by Hikaru, so that she could meet her father.

Max encounters Milia in the park and a knife fight between them ensues when she reveals that she is a Zentradi. Max defeats her for the third time, sparing her life, and the two fall in love. Milia decides to join the Macross and their immediate marriage marks the first union between a human and Zentradi, causing celebrations everywhere along Macross City. Boddole Zer, on the other hand, doesn't like the idea and plans to fix the 'contamination' that is human culture once and for all.