Yamata City is a city visited in Golden Sun: Dark Dawn and is the primary settlement on the isle of Nihan, the island where Izumo was once located. Visually, Yamata inherits the east-Asian themes of Izumo and has many Japanese references, such as the clothes worn by and the spirituality of the people. Yamata's encyclopedia entry reads as follows:
- "This city is the primary settlement on Nihan. Its culture is centered around spirituality, with many prayer shrines."
Shortly after the return of alchemy to the world, massive changes and devastating natural disasters affected the world. At some unknown point during the thirty year time skip between Golden Sun: The Lost Age and Golden Sun: Dark Dawn, a massive tidal wave hit the island of Nihan, destroying the city of Izumo. Luckily, Izumo's leader, Uzume, having forseen what would happen, was able to evacuate the citizens, who then relocated to the southern region of Nihan where they would found Yamata City. Unfortunately, Uzume died shortly after the relocation. In the wake of her death, Uzume's brother, Susa, and Susa's wife, Kushinada, would take over as rulers, becoming King and Queen of Yamata. Uzume would be buried in a tomb located beneath the royal palace. Together, the structures form the most prominent building in the city.
Before the events of the Grave Eclipse, Takeru, Susa and Kushinada's son, left Yamata in search of Isaac, due to a prophecy given by his sister, Himi, which warned of danger to Isaac. When the Grave Eclipse hits, Yamata is one of the regions that is safe, as it is far from the affected area. However, Himi fell into a coma around this time, for reasons that were unknown. Kushinada would lead endless prayer vigils, but none were successful.
During the Grave Eclipse, a grup of Adepts led by Isaac's son, Matthew, arrives in Yamata City while searching for a way to end the Eclipse. More specifically, the scholar Kraden wished to meet with Susa, whom he knew from his days traveling with the Warriors of Vale. Susa promises every aid he can give towards ending the eclipse. During the meeting, Kushinada collapses from exhaustion in the next room, so the group rushes to see to her. As Susa is tending to Kushinada, Matthew approaches Himi. A treasure in Matthew's possession, the Third Eye, reacts suddenly and enters Himi, awakening her.
Susa demands an explanation to the events, leading Himi to give a series of prophecies regarding the Eclipse. These prophecies grant insight into the nature of the eclipse, and go into detail about how the eclipse should be stopped. Specifically, the Adepts must collect three Colored Orbs and a set of clothing known as the Umbra Gear, and travel to the Apollo Lens, located in the heart of Angara. According to the prophecy, the Apollo Lens has the power to stop the Grave Eclipse. After giving the prophecy, Himi decides to join Matthew's party, as the Third Eye has granted her Psynergy that is crucial towards stopping the Eclipse. After Himi visits Uzume's tomb, the party leaves to pursue their goals.
The Adepts would return to Yamata at a later point, to search for the Yellow Orb, which is said to be located around Yamata. The Adepts are able to discover a secret entrance to ancient ruins while in Uzume's tomb. After exploring the ruins, they are able to successfully retrieve the Yellow Orb.
- Herb: In a pot inside the shop.
- Bramble Seed: In a pot in the bottom right house.
- Sacred Feather: In a pot inside the top right house.
- Weasel's Claw: In a pot inside the top right house.
- Power Bread: In a chest inside the top right house.
- 60 Coins: In a pot inside the palace.
- Vial: In a pot on the top floor of the palace.
- Kite: found on a ledge in the northwest corner of Yamata.