The academy was originally chartered by the Commonwealth of Pennsylvania in 1868, with instruction beginning the following year in the local Baptist church in Factoryville.

Louis Arthur Watres was a longtime trustee of Keystone Military Academy, and was one of the leaders who transformed the school into Scranton-Keystone Junior College in 1934.

[5] In August 2024, the college announced it had signed a merger agreement with the Washington Institute for Education and Research, whereby Keystone would become a subsidiary of WIER.

[8][9] Keystone's scenic 276-acre (1.1 km2) campus, located at the gateway to the Endless Mountains of Northeastern Pennsylvania, features hiking trails and a freshwater stream.

Keystone's 170-acre Woodlands Campus features approximately seven miles of hiking trails that are open to students and the public seven days a week from dawn until dusk.

Men's sports teams include baseball, basketball, cross country, football, lacrosse, soccer, track and field, and wrestling.