The land beneath the Rancho Bernardo Inn has been inhabited since long before the resort existed, originally home to the Kumeyaay people and later part of a 17,700-acre Mexican land grant called Rancho San Bernardo, deeded to English sea captain Joseph Snook in the early 1840s. The estate changed hands several times over the following century before the Daley family partnered with developer Harry Summers and businessman W.R. "Fritz" Hawn in 1961 to transform the remaining acreage into a master-planned community, with a boutique luxury hotel at its center.
The Rancho Bernardo Inn opened in 1963 with 30 guestrooms and an 18-hole championship golf course. James Colachis of JC Resorts acquired the property in 1975, and by 1977 the Inn had earned its first AAA Four Diamond rating, an honor it has held continuously for nearly five decades. In 2021, the property was formally inducted into the Historic Hotels of America program, a designation that reflects the depth of history woven into its grounds and architecture.