The county handles permitting for unincorporated areas, while incorporated municipalities like Las Cruces, Sunland Park, and Anthony manage their own independent building departments and permit processes. Development within the county is subject to specific flood zone regulations and the Doña Ana County Unified Development Code which governs land use and zoning requirements.
How this fits with the state
The state authority here is New Mexico Regulation and Licensing Department - Construction Industries Division. The county file does not replace that — it adds the permit office, local overlays, and the actual filing path.