The Facilities Management Department is involved in the maintenance of County facilities to ensure they are kept in good repair as well as meeting standards relative to public buildings. The Courthouse, Annex, Missoula City County Health Department, Partnership Health Center, Missoula County Detention Facility, Youth Court, Community and Planning Services, the County Warehouse and the Missoula City County Animal Control building all fall within the department's purview.

There are seven mountain top radio sites that are also maintained to provide County-wide 9-1-1 communications. The Facilities crew also assists other departments fulfilling their missions. An example is helping Elections deliver and pick up all election equipment throughout the County. All new or remodel projects in these buildings are coordinated through this department. In addition to managing these buildings, Facilities Management backs up the maintenance crews at the Missoula City County Library, the Missoula County Public Works Buildings and the Missoula County Fairgrounds.