Following the conclusion of the first ever Squad Jam, Pitohui is eager to see what she missed, dying to know how everything went down. To satiate her desires, M reviews footage of the competition with her, commentating on the trials that he and LLENN faced together. [Written by MAL Rewrite]

The year is 2755. As a result of a system malfunction, the cargo ship XeBeC goes off-course in a warp gate and ends up within the orbit of the distant planet Garaga. After crashing on Garaga's surface, the crew must find ways to survive from hideous monsters, rabid ape soldiers, and a race of mysterious psychics.

It is the year 2100, and on the colonized Moon, a project is under way to explore new aspects of energy. Amami Kurau is the daughter of the chief scientist on the project, and on her 12th birthday, she accompanies her father to the lab to observe the experiments. Then something goes awry, and Kurau is struck by twin bolts of light. In the aftermath, her father is dismayed to find that his daughter is no longer his daughter. Rather, her body is now home to two energy entities with fantastic powers.

Three years since the return of the legendary Space Battleship Yamato, Earth has begun rebuilding itself and has made peace with the Gamilans. However, this recovery comes at the cost of utilizing the forbidden Wave Motion technology. Meanwhile, the notorious former crew members of the Yamato, who have each gone their separate ways, receive a psychic message from the mysterious Goddess Teresa. She urges them to return to their beloved ship and travel to the distant planet Terezart. They are promised a revolutionary power to combat the unprecedented threat of the relentless Gatlantis Empire, who are approaching Earth with all but innocent intentions. Unable to resist her plea, the crew reassembles and sets sail on another perilous intergalactic voyage, one that will test their sheer courage and versatility in the face of an even greater foe.