After a gladiatorial fight to ascertain the legendary power of the Ispano-built Guymelef Escaflowne, King Aston invite omi and Van's party into the royal palace. The king is about to marry off his third daughter Millerna to a noble merchant's son, but Hitomi is shocked by the not-so-discrete kiss between Millerna and Allen. Meanwhile, agents hoping to lure Escaflowne out into the open seize the opportunity to capture Hitomi...

Suspicion of treachery falls on Hitomi and the rest of the party, and chameleon-like Zaibach operator Zongi (disguised as a Freid Praktu high priest) is sent to pry open her mind. During the ordeal, Hitomi reveals her origins from the Mystic Moon, but visions of Zongi's own past intervenes -- as well as a prophesy of death that send omi into a deathlike trance...

Hitomi's party exonerate themselves, and Duke Freid (the ruler of Freid who just returned) grants them an audience at his palace. With their input, Freid prepares for the imminent Zaibach invasion. Meanwhile, Millerna discovers a secret door in her sister Marlene's music box. It reveals a diary -- a diary recounting Millerna and Allen's past...

In the last battle, Van incurs life-threatening injuries which Hitomi discovers to match Escaflowne's battle damage exactly. Fortunately, Dryden (Millerna's betrothed) appears and uses his knowledge of ancient technologies to summon Escaflowne's original builders. The Ispano repair Escaflowne and in the process, heal the pilot whose blood pact intertwines his fate with the Escaflowne's. Thus restored, Van rushes to mete out vengeance upon the Dragon Slayers, despite the consequences.

Dryden discovers the location of the Mystic Valley (and purportedly also, the entrance to Atlantis) in Allen's father's diaries. In the process, Allen confronts his bitterment towards his absent father, and Hitomi discovers her grandmother also visited Gaea. The party is pursued by Folken's floating fortress until Hitomi's pendant and prayer opens a portal to Atlantis.

After Van receives a new Energist from his mother, Hitomi, Allen, and Van tranports to Dornkirk's fortress when Dornkirk attempts to activate his Destiny-Altering Device. Dornkirk explains to the disbelieving trio his apparently well-intentioned motives for all of Zaibach's actions.

With her upcoming marriage to Dryden on her mind, Millerna ask omi for a tarot reading on its outcome. Hitomi reads a prediction of misfortune and disaster, but decides to tell Millerna a prediction of happy fortune instead. She hopes her thoughts and faith alone would be enough to change fate and reverse the prediction. Her hope is shattered by the entrance of fortune-enhanced soldiers Naria and Eriya at the wedding.