The Eagle Master and World Destruction Committee battle for control of the Destruct Code, but only the Alligator Master knows the truth about a weapon powerful enough to destroy the world.
Alligator Master manipulates Lia to leave Nadja behind and hunt Morte on the Winter Continent, creating an opportunity for him to seize the Destruct Code.
In Clock Town, the Alligator Master covets the power of the Destruct Code and schemes to capture the World Destruction Committee while obstructing the World Salvation Committee.
On the Autumn Continent, the World Destruction Committee rests in a town where beastmen and humans coexist. Morte follows a boy who reminds her of her slain brother while Kyrie investigates the Destruct Code.
Trapped with a bomb on a submerged subarenine, the World Destruction Committee and World Salvation Committee must work together or perish at the bottom of the Sand Sea.
An innkeeper tells Kyrie, Morte, and Taupy that the World Destruction Committee has been robbing antique stores and committing eat-and-runs throughout the area.
The World Destruction Committee seeks refuge from the Summer Continent's oppressive heat at a charity hospital where humans and beastmen appear to live in harmony. The hospital director arouses Morte's suspicion.
Kyrie, Morte, and Taupy are rescued from the Sand Sea by a smuggler and dropped off at a casino ship, where they encounter World Salvation Committee agents Nadja and Lia.
Kyrie joins World Destruction Committee member Morte as she escapes the World Salvation Committee. The village in which they take refuge needs a human sacrifice for its beastman ruler; Taupy agrees to rescue the victim.