In ages past, after the earth-rending battle between the Holy and the Black Dragon, where the Holy Dragon was killed, the dragons and Dragoons worked together to knit the land back together. To this day, the six separate aspects of the Holy Dragon-Fire, Water, Thunder, Earth, Wind, And Frost-maintain general peace and order across the world.

The hero of the story, Valen, is about to graduate from the Dragoon Academy. He's visiting Granadis, capital of Iris, to attend his graduation and confirmation as an official Dragoon. Tradition dictates that all six dragons attend the ceremony.

As the masses gather for the event, dark clouds fill the sky and a horrific dark dragon appears above Granadis. He spews ebony fire and destroys the royal palace. Sudden;ly, the Water Dragon appears to challenge the intruder. But with a crushing blow, the dark creature severely injures the Water Dragon and escapes into the sky.

Valen approaches the destroyed palace and finds a girl, Euphe, lying ing the rubble. Suddenly, a surviving beast attacks and Valen must protect the girl from its fury. Euphe wakes to find her "charming prince" standing over her and quickly falls in love.

Valen and the other Dragoons are charged with investigating the Black Dragon, and finding out why only the Water Dragon appeared at the ceremony. Valen is given the Fire Orb and told to present it to the Fire Dragon as a symbol of trust. As he prepares to leave, Euphe appears again, who has somehow obtained the Water Orb. They leave the city, ready to embark on a quest to uncover the truth and protect the dragons of the world.