Spirit Hunter: Death Mark

The story is set in H City, Tokyo, where it follows an amnesiac, player-named man whose default name is Kazuo Yashiki. In the beginning of the game, Yashiki notices that he carries a scar on his arm, called the Mark, which according to rumors is caused by curses or contact with ghosts, and will lead to its bearer's death at dawn. After noticing the Mark, he blanks out, and finds himself in front of Kujou Mansion, where he finds its owner, Saya Kujou, dead. Kujou also bore the Mark, and had researched it, but died before finding a solution.
In the first chapter, "Hanahiko", Yashiki meets the sentient doll Mary in the mansion, who gives advice on the Mark, as well as two Mark bearers who had been drawn to the mansion: the occult-loving high school student Moe Watanabe, and the elementary school student Tsukasa Yoshida. Believing that they got the Mark from trespassing in the abandoned H Elementary School, they go there to investigate, and join with ex-detective Satoru Mashita, who also investigates the school and carries the Mark. They learn of the vengeful spirit of Hanahiko, an orphaned boy who was subject to child abuse by the school's principal for liking to wear skirts and makeup, and who as a spirit killed the school's staff. The group calms the spirit with Hanahiko's mother's lipstick, a keepsake from when Hanahiko was alive, which absolves everyone's Mark except Yashiki's; Mary believes Yashiki's to be from another spirit, although it is weakened, allowing him to live a while longer.
In the second chapter, "Shimi-O," another Mark bearer, the young delinquent Shou Nagashima, arrives at the mansion. He believes he got his mark from a "huge man" he encountered when his bike broke down outside of H Forest. Mary believes this huge man is Shimi-O, the spotted man of the woods. According to the rumors, he kills people with a massive drill and turns their bodies into beehives. Yashiki and either Shou or Mashita, who has stayed behind to help Yashiki, head to the forest to investigate. They encounter an enraged man named Masao Kimura whom they manage to calm down. They also find a series of cabins with notes about the "Honey Bee Family" cult, and corpses with holes drilled into them. Hiding inside one of these cabins is Christie Amamura, a journalist who was involved in a scandal and came out to the woods to kill herself. But after encountering Shimi-O, she became scared and joined up with Yashiki and his partner. The group was forced to flee the forest, narrowly escaping a deadly encounter with Shimi-O. Due to this encounter, Mashita's mark returned once more. The group learns that Shimi-O was the leader of the Honey Bee Family cult, who all participated in mass suicide in the forest. However, he survived, and became a vengeful, lonely spirit. Yashiki and his partner are able to put Shimi-O's spirit to rest by giving him a poisionous root covered in honey, killing him and allowing him to be reunited with his "family." Mashita and Shou's marks vanish after this, but Yashiki and Christie's marks remain, meaning that Shimi-O was not the spirit who cursed them.