Gulf of the Farallones and Cordell Bank National Marine Sanctuaries Boundary Modification and Protection Act - Declares it is U.S. policy to protect and preserve living and other resources of the Gulf of the Farallones National Marine Sanctuary (Farallones NMS) and Cordell Bank National Marine Sanctuary (Cordell Bank NMS) marine environments.
Makes certain adjustments to expand the boundaries of the Farallones NMS and the Cordell NMS.
Prohibits within the Farallones NMS and the Cordell Bank NMS: (1) the leasing, exploration, development, production, or transporting by pipeline of minerals or hydrocarbons; (2) the conduct of aquaculture (with exceptions); and (3) the discharge of materials and substances or a change in the salinity.
Directs the Secretary to complete an interim supplemental management plan for each sanctuary that focuses on protective resource management in the areas added by this Act.
Requires the Secretary to review the operations of the Farallones NMS to determine whether area added to it by this Act shall be designated as a new and separate NMS.