St. John in the Wilderness (also known as St. John-in-the-Wilderness) is a historic church and cemetery in Flat Rock, North Carolina.

Charles and Susan Baring, who considered Charleston, South Carolina too hot in the summer, were among the first settlers of Flat Rock in the 1820s.

Other people moved from Charleston to Flat Rock, which Bishop Ives called a "new but interesting settlement" in 1837.

The church started as a private chapel for the Barings, who later transferred the title to Bishop Ives and the Episcopal Diocese of North Carolina.

Later, slaves and free blacks were buried in the church's cemetery.