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|Wawku Shrine||Ark of Yamato||None|
Once satisfied with the desired things done, approach the rainbow bridge at the altar at the edge of Laochi Lake. Cross the bridge, and observe the cutscene that ensues. After the conversation of resolve, Amaterasu will be within the antechamber of the Ark of Yamato. Move forward, and one of the remaining spirits of the Celestials, Marco will greet her. Right now, the interior of the Ark is a threatening red, instead of Moon Tribe-pulsing neon blue and there are five paths that branch from the central platform. Each path will lead to a certain battle against all the major bosses defeated, Lechku & Nechku not included (Spider Queen, Crimson Helm, Orochi, Blight and Ninetails). On the path to the first, third and fifth boss, three other spirits of the Celestials, Hakuba, Sado and Azumi, will be encountered. They only provide background informations of the Ark of Yamato and the genocide that ensued, though.
After all the bosses have been defeated, the Ark will be turned back to its original Moon Tribe-pulsing neon blue color. Meet Marco for some last-minute shopping to be prepared for the massive battle that is going to take place. Then, step in the central platform's now unlocked teleporter. Marco will bid Amaterasu farewell before she engages in the battle that will define the fate of Nippon.
Final Boss Battle: Yami
- Main article: Yami#Strategy
After the long battle, watch the cutscene and credits that follows. After this, an option allowing the creation of a New Game+ save file is offered. If accepted, Amaterasu will begin another journey from the beginning, but with all of her obtained Divine Instruments (save for the fifth-tier ones), Holy Artifacts (except for the Thief's Glove and the Fire and Water Tablet) and Dojo Techniques (Holy Eagle and Digging Champ, however, will not transfer over).