Upon learning that Maltran her teacher has been imprisoned by Bartlow, and is being crucified, Alisha and her subordinates sneak into Ladylake. Swearing that “no one must die,” she sprints through the city undauntedly even though Bartlow’s men obstruct her path. Meanwhile, Sorey and company pursue the dragon which is headed towards Ladylake, but the dragon picks up speed, making it impossible for Sorey to catch up. About that time, Lunarre comes to taunt Maltran, who smiles and retorts, “Alisha will not come here.”

After Alisha leaves, Sorey fears that the mysterious man that appeared in Elysium is after her. So Sorey, accompanied by Mikleo, head for Ladylake, the water capital where the Sacred Blade Festival that Alisha mentioned is being held. Upon arriving in the capital, and seeing the human world for the first time, Sorey cannot hide his amazement at the people and scenery. Thanks to a young girl named Rose who comes to his rescue, he is able to enter the city. But the capital is teeming with Malevolence which causes Mikeo to grow physically weak. During that time, Sorey sees the man who was after Alisha.

Alisha’s party and the medical unit find the bridge leading to Marlind collapsed due to the heavy rains, and start searching for a detour. Meanwhile, Sorey continues his journey and reveals to Edna the seraph that he is going to Rolance, which is rumored to have many ancient ruins where dragons were deified as gods. Sorey’s earnest faith in the writings in the Celestial Records exasperates Edna, but she opts to tag along. Later, Lailah asks Sorey, “What does ‘purify’ mean to you?” This causes Sorey to reflect on how he must confront future hellions. About that time, Mikleo, armed with a Divine Artifact, heads for Griftlet Bridge where a maelstrom of clouds swirls overhead.

Velvet escapes from the prison tower with the help of a young daemon named Rokurou. The only way to access the island prison is by ship, so she and Seres head for the harbor. But Oscar, the praetor exorcist who has been ordered by Artorius to subdue Velvet, is already there. Velvet takes him on. Oscar believes in the natural law of the world that Artorius espouses. But Velvet cannot forgive such a world that was made possible by the sacrifice of her younger brother. Completely at odds with each other, the fighting continues...when suddenly, a dragon appears.

War inevitably breaks out between the Kingdom of Hyland and the Rolance Empire. Just at Bartlow had planned, Alisha is stabbed by a soldier from her own kingdom. Meanwhile, an immense mass of Malevolence appears before Sorey and company on the main battlefield. It is none other than Heldalf, the Lord of Calamity. Sorey sees the real Heldalf in the center of the Malevolence and declares that he will “purify” him. Even as countless hellions summoned by Heldalf charge at him, Sorey has faith in his power and the power of his friends, and continues to fight.

Despite being thwarted by numerous dragons and the Malevolence, Sorey and company forge ahead and catch up to the Lord of Calamity. But after declaring that he is going to the center of the world, the Lord of Calamity disappears. Sorey and the others pursue him far to the north to the town of Meirchio where they encounter Grimoire of the Normin Clan. In town, Sorey ponders about the origin of the Malevolence, as well as the seraphim and the Lord of Calamity. After their short respite, Sorey along with Alisha, Rose and the five seraphim bid farewell to their friends who had traveled with them, and they set out to their final battle.

One by one, the people she met at Guriel and her attendants are swallowed up by the tornado, leaving Alisha all by herself. As she wanders, she comes upon an ancient ruin and finds a mural depicting the “Shepherd,” who will save the world from calamity. But she is attacked by a huge swarm of insects. Alisha barely gets away alive and as though guided by the crest of the Shepherd, arrives in the celestial capital. Just around that time, Sorey, a human youth who resides in Elysium, Home of the Seraphim, and Mikleo, a young Seraph, have also come to the ruins.

Velvet – a woman who is in prison. Devouring monsters called “daemons,” she has lived in confinement for several years. Velvet has only one purpose in life. To get revenge against the man who leads the Abbey, an organization of exorcists who possess the power to battle daemons. To bring down the man they call their savior, Artorius Collbrande. One day, Artorius’ former partner, a Malak known as Seres, appears before Velvet to try to help her escape.

Rose finally finds Prince Konan, the target of her revenge, but he has already turned into a hellion. Her attacks against him are useless and he counters with a power that is beyond human. When Dezel comes to her assistance, the tower inside which they are fighting suddenly collapses. Sorey rescues them, but Rose is distraught that Konan is nowhere to be seen and that she did not “finish him completely.” Sorey tells Rose he disapproves of her being an assassin, to which she replies, “There are guys in this world who must be killed.” And Sorey goes on to explain about “Malevolence.”

In Lastonbell, the assassination guild known as the “Scattered Bones” led by Rose kills the bishop who has been fattening his pockets and silencing any who might talk. Despite feeling uncomfortable about Rose’s attitude, Sorey joins her for breakfast. Sergei, the general of the Rolance imperial guards, the Platinum Knights, appears. The previous night, he had come looking for Sorey, only to end up getting intoxicated, and has come to apologize for his unbecoming behavior. Just then, an explosion occurs near the city’s sanctuary, causing the ground to collapse. Sorey and company rush to check. After confirming that the Malevolence caused the collapse, they enter the sanctuary to perform a purification.

Sorey pursues the elusive Drake to Marlind and reunites with Mikleo who has acquired a Divine Artifact in the form of a bow. Entering into a Sub Lord pact, they armatize and successfully purify the Drake with an arrow. Later, they go to help with the reconstruction and set about purifying the town’s water. Sorey accompanies Alisha to disperse emergency supplies that have arrived from Ladylake and encounters Rose, the Sparrowfeathers merchant who helped him when he first arrived in Ladylake. Her group has also brought supplies from Ladylake.

Accompanied by Rose and the Sparrowfeathers, Sorey and friends head for a new land, Rolance. On the way, some rogues try to sell Rose stolen herbs. When she sees through them, they threaten her, but Rose thrashes them easily. Sorey is impressed with her sharp business acumen. At night, he continues to train with Lailah, learning to recognize and stop the Malevolence; honing his skills to confront the powerful mass of Malevolence known as "The Lord of Calamity." The party arrives in the commercial city of Lastonbell and meet Mayvin the storyteller.

Rose is enraged upon learning that her trading partner Guren was captured by the Bishop’s men and is no longer alive. To ease her anger, Dezel the Seraph sets out to destroy the church sanctuary in Lastonbell. While Lailah and the others go to stop him, Sorey goes to join Rose. Although she cannot see Dezel, she becomes aware that Dezel is causing the phenomenon occurring near the sanctuary, and urges him to stop. Sorey asks Dezel, “Why did you try to destroy the sanctuary?” And Dezel recounts his past, and how he first met Rose.

With the help of his friends, Sorey purifies the dragon that resides inside the tornado headed for Ladylake. Alisha and Rose had absorbed some of the Malevolence from Sorey. This takes its toll and causes them to fall into a deep slumber, but they awaken with no ill effects. They resolve to continue to help Sorey as his squires. Meanwhile, Dezel battles Symonne who declares that her master, the Lord of Calamity, can no longer be stopped, and that the world will end. Symonne shows Sorey an illusion of the Lord of Calamity and despite feeling the impact of his overwhelming power, he decides to head for the northern land to find the Lord of Calamity.

Long ago, her comrades in the Windriders and her foster parent Brad had been driven to death by the imperial prince, Konan. Rose receives news of Prince Konan’s whereabouts and begins preparing for a journey of revenge. Sorey is told of the unceasing rain by Sergei and decides to go to Pendrago, the capital of Rolance, to investigate the cause. Worried about Dezel, Sorey asks Rose to join him on the journey, but is flatly turned down. As he heads out to Pendrago, he asks Mikleo to follow Rose, and Dezel who is with her. Mikleo agrees, and he and Edna set out to check on how Rose’s journey is going.

Sorey and the others leave Rohan the seraph and Atakk the Normin seraph to watch over Marlind, and head for Glaivend Basin at the border of Hyland and Rolance, where Bartlow is attempting to incite a war. Sorey warns Alisha that if war has begun, he will side with neither Hyland nor Rolance. But as a Shepherd, he wants to stop the fighting. Sorey and company reach Glaivend, only to find a battlefield teeming with Malevolence. Alisha sets out to convince Hyland’s General Landon to stop the fighting, but Sorey tells her “I am going to do what I can.”