New "cocoon masters" are now cited as "beasthunters" and are the prominent force of monster raising, with the player playing one named Kahu who visits the Temple of Kemuel in the hopes of becoming a beasthunter and having adventures like the old cocoon masters he's idolized.

However, Kahu encounters trouble during his license exam required to become a full-fledged beast-hunter.

He encounters a young fairy named Nico, who leaves Kahu cursed, and he's given a very short time to live before his body is consumed by evil.

Kemuel Temple's resident guardian, Levant - the hero of the original Jade Cocoon - offers Kahu a chance to heal himself.

By utilizing the four magical orbs found in the heart of the elemental forests and a dark lute, Levant will be able to save Kahu's life.