The County of San Diego oversees permitting for unincorporated areas. Incorporated cities within the county, such as the City of San Diego, Chula Vista, and Oceanside, manage their own building and zoning permits. Various overlays, including coastal, floodplain, and hillside regulations, may apply depending on the specific location within the county or its incorporated cities.
How this fits with the state
The state authority here is California Contractors State License Board. The county file does not replace that — it adds the permit office, local overlays, and the actual filing path.