The post headquarters building included a gun shed. This structure was completed in 1848. It contained the post commander's office, his adjutant's office, a court-martial room, an ordnance storeroom, and the gun shed which occupied the north part of the building.

There were two 6-pound field artillery pieces which were in use at Fort Scott from 1845 to 1853. The evidence indicates that the 6 pounders were made of iron, and were susceptible to the weather. The gun shed served as a safe storage area to protect these pieces from the weather.