Zola and the team assault the fortress to free the captives from the city. Logi defeats Zola, then defeats both Jiro and Marumaro. He leaves for an audience with Nene, leaving the twins in charge. Shu manages to manifest and control the Blue Dragon, defeating the twins in the process. Shu and the rest then receive a mission to escort Legolas to the capital.

Shu finds the gang and and now is in the Grand Kingdom's capital city. While that, Grand Kingdom's army is fighting Jiburaro Kingdom's army. Shu Nand the others get inside Nene's place(nene is a villain). While Shu and the others are finding Nene, they discover that Nene is planning to take out children's shadows and using them as their weapons.

Shu and his friends want to hire an informant to help them find the Extra Seven but are told that an informant named Homeron the Great had died in battle against Gran Kingdom. At the same time, they meet the other Homerons ranging from Homeron the Original, Homeron II, Homeron the Legitimate, and Homeron Jr.. To pay for another informant, Shu heads off on his own to defeat the dangerous monster called the Gigarus and claim the reward. Shu and Blue Dragon managed to defeat the Gigarus and the group learns that the woman that hired Shu is actually Homeron the Great. However, Marumaro has gotten lost from the group.

Shu and Co. encounter Homeron again. He reveals that the information of the Extra 7 is somewhere in Gran Kingdom's Castle Des La Teste and they will have to infiltrate it to get to its master computer. Conrad L. Lawrence is shown to be imprisoned in a local prison run by Cynthia which Homeron also tells Shu. Zola comes up with a plan to lure the guards from Castle Des La Teste in order to rescue Conrad and get the information. As the others attack the prison, Homeron, Kluke, and Bouquet infiltrate the castle. Upon rescuing the captive soldiers, Shu and Jiro free Conrad and run into Cynthia. Lemaire also arrives to help Cynthia and both of them begin to overwhelm Shu and Jiro until a successful attack from Blue Dragon and Minotaur weakens them down. Zola catches up after destroying the robots that came with Lemaire. With the reinforcements from Castle Des La Teste approaching, Zola issues a retreat as Homeron begins his infiltration.

When Nene's fortress starts attacking Coreed, Conrad has Shu and Co. ride giant birds called Gryphs to Nene's fortress while Conrad and the others fight Black Shadow Type-Two robots. Zola also tells Shu and the others that Nene is one of the descendants of the Soldiers of Light. They successfully infiltrate the fortress. Once inside, they end up in the S-Field and fight Black Shadow Type-Three robots which have nanobot technology that enables them to regenerate. After recurring take downs on the Black Shadows, Bouquet and Hippopotamus manage to find the control room General Szabo is in and gets in as Nene. Bouquet then reveals herself and then transforms into a Black Shadow Type-Three and manages to use Hippopotamus' new ability to copy the optic attack of the Black Shadow Type-Three which sends General Szabo flying into the air and exploding. After Bouquet shuts down the Black Shadows, Shu and the others locate Nene's throne room for the final battle.

The mysterious woman before now known to be named Lotarus is shown to be one of seven shadowy dragon from the castle in the sky. She is given freedom to re-judge the people of the world even after her ordeal with Logi. She runs into Mikhail and tells him that she will handle the next test. In Logic, Shu is at the library looking up while Bouquet takes Marumaro and Noi out shopping for groceries. After Marumaro and Noi ditch Bouquet, she runs into Lotarus (who uses the alias of Lota) who becomes curious about her. She asks what Bouquet wished for if she had power, but she replies that she already has everything she wants. Meanwhile, Shu finds nothing on where the dragon sightings are. Bouquet finishes her shopping with Lotarus and takes her around town. Shu is still trying to find the sightings of the Red Dragon on the map while recapping what Mikhail said. While Marumaro and Noi are enjoying an ice cream cone, Noi ends up noticing Lotarus near Bouquet. Noi runs off to tell Shu that Bouquet might be in danger. Shu even recaps about Xie telling him about a woman floating over the waters when Albarose was destroyed. While in the park, Lotarus forges a Dragon Scale Pendant behind her back and begins to offer it to Bouquet stating that it will give Bouquet what she wishes for. But before Bouquet can accept Lotarus' gift, Shu cuts in and identifies Lotarus as being in the same race as Mikhail. As Shu unleashes Blue Dragon, Lotarus ends up unleashing her shadow that resembles a white dragon with pink wings. Shu and Blue Dragon fight Lotarus as she states about the Dragon Scale tests causing Shu to recap the incidents with Crester and the moving pyramid. Lotarus states that the Dragon Scale tests were done by Mikhail and that Mikhail had been watching him. Right when Shu and Lotarus are about to make their next move, Bouquet interferes causing the match to be a draw. Before she departs, she tell Shu and Bouqet to tell Noi to make his decision as well. Later that evening, Shu gets Marumaro and tells them that they are going to find Mikhail who is spotted nearby the wetlands at the edge of Logic.

After Shu's brief talk with Primella, Noi finds a path out of Nirvana while Shu options another route for their next destination. Shu and Co. make their way through the city while evading the White Brigade's patrolling shifts commandeered by Furioso's intelligent tactics. During this part, Bouquet's hair touching Marumaro's nose causes him to sneeze giving them away to one of the security shifts. Shu and Marumaro manage to take them down as the next shift appears. Lucky for them before the soldiers ca signal, Jiro arrived and took them down. Jiro manages to create a diversion as Shu and the others make their escape, but Furioso easily recognises the ruse. When Furioso gets ready to intercept and fire where Shu and Co. are, Dr. Tarkovsky intervenes and tells him and the soldiers in the area to fall back, courtesy of Primella's plea.

Kluke starts to get exhausted from various teleporting when getting some White Guardian soldiers away from the battle. After decimating half of the White Guardians' troops, General Logi clashes with Furioso. As the battle rages on, the Investiture Beings continue their meeting as Mikhail plans to take action upon both sides despite the objections of Hildegard and Lotarus. Shu and the Noi/Blue Dragon have begun their fight with Vermillion. Kluke finally collapses from the strain. Meanwhile, Delphinium and Matilda engage each other in battle which ends with Matilda having Zephyrus teleport her away from Delphinium and Deathroy. As Shu and Vermillion are locked in combat, Mikhail ends up leaving the floating city. General Logi and Furioso are still locked in combat until Furioso leads him into a trap consisting of the White Guardian soldiers firing their cannons at him. General Logi manages to evade it and makes a striking blow toward Furioso only for one of the White Guardian soldiers to throw himself in front of Furioso. Jiro and Xie continue their reconnaissance. General Logi's hideout blows up to reveal a weapon air fortress called Sleipnir which decimates some of the Brunacks. During Shu's fight with Vermillion, Mikhail arrives and assumes his Red Dragon form and starts attacking the Rosekstan soldiers and the White Guardian soldiers. Shu and the Noi/Blue Dragon managed to put up a barrier to protect Jiro and Xie. Shu ends up going into overdrive which starts to make the grounds unstable, but lets himself get beat due to the pleas of Kluke, Bouquet, and Marumaro.

Rosekstan begins their attack on Rudolph's war machine. Rudolph then unleashes his winged creatures, a bunch of Amethyst Dragons, a Moody Dragon, and a Phantom Dragon. Jiro, Kluke, Marumaro, Bouquet, Andropov, and General Logi unleash their shadows to attack the war machine while Noi looks for Shu. Meanwhile, Shu makes contact with Zola's spirit. As the battle progresses, Rudolph's war machine decimates most of the Rosekstan fleet. Just as one of the winged creatures is about to attack Jiro, he is saved by Delphinium and Deathroy (who have unleashed Chimera) as they arrive with reinforcements. Sleipnir fires its cannon at Rudolph's war machine but to no avail. Rudolph then fires the attack which decimates more Rosekstan airships as Noi charges towards the war machine.