Episcopalians organized in Katonah in 1855 as St. Mark's Episcopal Church, under the pastoral care of St. Matthew's,Bedford. The congregation was disbanded in 1887, but in the following year, John Jay II - the grandson of the first U.S Supreme Court Justice - made a codicil to his will leaving $500 for the erection of an Episcopal Church in Katonah.
The building of the church was disrupted due to the relocation of the village at the end of the nineteenth century to make way for the Muscoot Reservoir. An Episcopal congregation was eventually reestablished in Katonah in 1916, initially meeting in a movie house and then in a warehouse. In 1921, the congregation petitioned St. Mark's, Mt. Kisco, to formally adopt them as a parochial mission. The same year, on October 21, the cornerstone for St. Luke's Church was laid.
St. Luke’s is a Tudor Revival structure. The church building was designed by Hobart Upjohn, third in the family of American architects by that name. In 2001 St. Luke's was added to the National Register of Historic Places.