The story of Yotsunoha revolves around a group of friends, reunited after being separated for three years as a result of the closure of Mochizuki Academy, the school they have attended in together. Upon arrival, Makoto Yūki, the protagonist discovers that the time capsule the group of friends buried prior to their separation has been dug up. In its place is a note left by his former teacher Yamamoto, informing him that he has dug up their capsule and hidden it elsewhere in the school. After being reunited, Makoto and his group of friends decide to stay overnight, looking for clues left behind by their teacher, and find the time capsule.
