The museum was originally the first hospital for Wongan Hills and the surrounding area. In 1927 at the local Roads Board Meeting the issue of the need for a hospital was raised. Before this time people in the area were taken to Goomalling, 25 miles away. A rate payers meeting also addressed the problem of no local hospital. Dr Stenning had commenced practicing in Wongan Hills in 1929 and he assisted the townsfolk in raising and acquiring the funds for the hospital to be built.

In 1931 the hospital was opened. It had been built so that if the hospital did not continue it could be turned into a boarding house. Alterations and additions were made in the late 1930’s. In the 1950’s the doctors consulting room and waiting room were located within the hospital building.

In 1965 a new hospital was constructed. The original hospital had operated for thirty three years. The old hospital was used for nurse’s quarters. At times the flat within the building was rented out. In 1971 the Wongan Hills and Districts Museum and Historical Society took over the building. In 1972 the Wongan Pioneer Museum was officially opened.