An old woman has died and her widower with dementia confesses to killing her. After this, the story goes back in time to show the events leading up to her death.

A remake of episode 22 of the TV series, the 999 is attacked by the pirate ship Queen Emeraldas, which forces the train to a pirate planet. There Tetsuro and Maetel are captured by the pirate Emeraldas, a caped woman who seeks to switch her body with Maetel's.

On a beautiful island in Seto Inner Sea, Seichi and Minko make their living by transporting rocks to construction sites by boat. They cherish the deepest affection for this piece of land they call home, and the simple life they lead. But rapid industrial growth makes it all but impossible to continue their chosen living style, and they are forced to leave their beloved hometown in search of a brighter future. But their hometown lingers on their hearts, and they dream of a time when they may once again return.

Cobra lived an adventurous life until his enemies began to hunt him down. He surgically altered his face and erased his own memory in order to hide from his foes and lead a normal life. Eventually, he regains his memories and re-unites with his old partner Lady Armaroid and his ship Tortuga. Cobra travels the galaxy, fighting the outlaw Pirate Guild, but also fleeing the law-enforcing Milky Way Patrol.