Racing desperately to catch the ghost train before it departs to the next destination, Lisa and the twins wind up watching helplessly as their mode of transportation leaves them behind. Stranded, fate seems to intervene when the thief from earlier appears and leads the stranded travelers to the secret base of the Comodeen - an armed resistance organization training to liberate Wonderland from Earl Tyrant’s rule. It is here that the group is introduced to Knave, the leader of the Comodeen, along with Miles, and the talented inventor Cid.

The twins and Chobi are captured by Fungus and sent on his ship. He plans to sacrifice them to the Earl. Makenshi comes along to warn Fungus about his certain destruction. Kaze and Makenshi spot each other and fight. Kaze cannot fire the Magun. Makenshi gloats that Kaze cannot fire the Magun at will anymore. Fungus grows once again and ties Chobi and the twins to his giant club. Crux comes along and uses a black mold on the world, killing the fungus. Fungus' powers become useless. Kaze uses the Magun to summon Meteor Master to destroy Fungus for good. Fungus respects Kaze in the end and dies with honor.

Jane arrives on top of land, unmovable. A giant Japanese mermaid named Samosan gives them a challenge. Three of them shall try to answer her riddles. Each one they get wrong, they will be sent closer to Chaos. If they cannot solve a riddle, they shall be consumed by Chaos. The Commander, Miles, and Lisa go up in that order. She asks riddles that seem easy, but turn out to be only knowledeable to those that live in Wonderland. The Commander and Miles lose and are turned to water. Lisa tries, but misses the first two. She tries to stall by laughing and smiling to Samosan for the last answer, but Kaze tells her that it's all a lie. Lisa then challenges Samosan's quesitons saying that there are no answers. Samosan, knowing she lost, tries to destroy the cube they inhabit. With their doom inevitable, Lisa uses her life energy to summon a Kigen Dragon that saves the sub. However, she survives, but was knocked unconscious. Ai and Yu call her attack a Kigen Summon.