After warping light-years away from Earth, the spacecraft Macross carries a city of civilians and soldiers back home. They continuously fight off the threat of the Zentradi and Meltrandi, giant alien races with whom humanity wages war. During a battle, the Macross transforms into a mecha operated by fighter pilot Hikaru Ichijou. Thrust into a number of hardships, Hikaru grows close to the city's idol Minmay Lynn. As their relationship develops, however, it is viewed unfavorably by others due to Minmay's status and popularity. With war raging on and the state of Earth unknown, Hikaru and his fellow soldiers fight on against their mysterious enemies. Throughout the bloodshed, Hikaru and Minmay attempt to keep hold of their feelings for one another. Minmay pours her heart into her music, which may just turn out to be the key to finding peace.

Four months before Count von Lohengramm of the Galactic Empire faced Yang Wen-li of the Free Planets Alliance at the Battle of Astarte, he was still just Reinhard von Müsel. The youngest admiral in the Empire's history, Reinhard was disdained and dismissed by his peers as the brother of the Kaiser's concubine. Upon arriving at Iserlohn Fortress with his expeditionary fleet, Reinhard immediately receives an order from the ambitious and cunning Fleet Admiral Gregor von Mückenberger: to intercept an Alliance fleet in a neighboring starzone. Despite recognizing this as a veiled attempt to get him killed in combat, Reinhard nevertheless orders his tired and weary men to engage the enemy in the atmosphere of the gas giant Legnica. But unbeknownst to him, this will mark the first of his many historic encounters with the Hero of El Facil.