Manipura (マニプラ*)? is the city in the Junkyard where the Maribel have their headquarters. This area is home to two dungeons: Maribel Base and the Samsara Tunnels.
The Embryon visit the Maribel Base to form an alliance with the Maribel, so that the two tribes can defeat the Solids. At first, Jinana, leader of the Maribel, is skeptical about the alliance, so the Embryon have to fight their way through the city to meet her. Inside the city, there are seven gates that need to be opened through switches, each of which is normally found near the corresponding gate. At the end of the dungeon, Jinana's lieutenant, Bat, challenges the Embryon in his Atma Avatar form, Camazotz. Once he is defeated, Argilla convinces Heat to let Bat live; he is left weakened and bleeding in the floor, vowing revenge against Argilla for humiliating him. Jinana agrees to the alliance, and the Embryon and Maribel travel to the Solids' base at Anahata.
After the assault on Anahata, during which Jinana goes mad and is killed by the Embryon in self-defense, the Embryon return to Manipura while looking for Bat, who betrayed Jinana to the Solids. Upon arriving, the Embryon are joined by Gale, who has recovered from the madness induced by his hunger. Enraged by the discovery Bat had overheard Agrilla's words to the dying Jinana and devoured her corpse, Argilla, in a fit of rage, let Bat go away after a brief scuffle, having no way to pursue. The Solids trap the Embryon in the Maribel Base while the rest of the Solids go to the Embryon Base at Muladhara to kidnap Sera. The Embryon fight their way out, defeating more powerful enemies, ending with an Atavaka, who is guarding the exit.
Much later, after defeating Beelzebub in his humanoid form in Svadhisthana and defeating Ravana in Ajna, the entrance to the Samsara Tunnels, which connect to Muladhara, opens. Here, the Embryon can defeat Beelzebub in his Fly form. Finally, once the Embryon have reached the topmost level of the Karma Temple, Baihu of the Four Guardian Beasts can be found and defeated in the Maribel Base.