The Fauquier Institute or Fauquier Female Institute was a small private school in Warrenton, Virginia, United States. It operated from 1860 through the late 1920s. It was a boarding school and a day school, teaching primary, preparatory, and collegiate female students. It advertised "elegant accommodations, excellent advantages, reliable terms".

In 1857, a group of investors purchased seven acres with a house in Warrenton, Virginia, from William F. Phipps, to establish a girls' school, the tentatively called the Fauquier Female Seminary. Rather than using the existing brick house, they hired John R. Spilman of Warrenton to build a new, large school house.

Fauquier Female Institute opened in October 1860. It claimed to provide a "quiet, retired, and healtful situation" to educate women in "these agitating times". It was a boarding school and a day school for local students. Its original principals were J. S. Bacon, DD and R. P. Latham, A.M. In July 1866, the school property was purchased by Rev. H. H. Wyer of Louisa County, Virginia. He moved to the Institute and oversaw its operation with Bacon.

In August 1868, the school was operated by Wyer and J. B. Budwell. It was sold to John A. Spilman and Dr. Robert Frazer in 1871. Frazer was in charge of the institute. In 1875, Mr. Averett who had been the institute's principal, left to start a school for boys in Culpepper. Miss A. Taylor of Baltimore, Maryland rented the school in July 1875, with plans to open it in September. In September, a newspaper reported that a Prof. Dowdy from Louden County, Virginia was now in charge of the school.

Frazier became the sole owner of the institute in 1877 and was its principal. He left in 1882 to become the president of the Judson Female Institute in Alabama and was, later, president of Longwood College in Virginia. In August 1882, Rev. Dr. J. A. Chambliss, pastor of the Citadel Square Baptist Church of Charleston, South Carolina became the president of the institute. Rev. Alexander Fleet, previously the pastor of the Broad Run Baptist Church, became the institute's principal in 1886.

In February 1887, the institute was purchased for $10,000 by Prof. Ayres of Marion, Alabama. Fleet returned to his prior home in Essex County, Virginia. George A. Bulter was the school's principal in 1887; he previously had a private boarding school in Pottstown, Pennsylvania. Major Robert P. Barry purchase the Fauquier Female Institute for $8,000 in July 1888. Barry leased the institute to Butler who operated the school with his wife, Adelaide, and their daughters Nellie and Edith. Butler remained principal of the institute until his death on August 7, 1908.

In 1890, the school began opening as a summer resort for private boarding during the summer months. This was an attempt to balance the institute's budget. The Richmond Dispatch reported that the school had applicants for students from Puerto Rico and other distant locations in 1902. That year, the institute had its highest number of students in its history and had to turn away qualified students due to a lack of space.

Miss Nellie V. Butler became the institute's principal after the death of her father, George Butler, operating it along with her sisters Alice and Edith. By 1912, the institute was a member of the Association of Colleges and Schools for Girls. The institute was purchased from Barry by local businessmen Joseph and Herman Ullman in 1915. Nellie and Alice Butler retired in 1923. Three teachers stayed and attempted to keep the school open. In 1923, Miss May Strother and Mrs. Katherine D. Carr took over the institute. In 1926, ads called the school the Fauquier Institute for Girls.