The Port Isabel and San Benito Navigation District is the port authority. Port Isabel is one of Texas' few deep-water ports with a depth of 11 meters (36 feet). Created in 1929 to save transportation costs for the agricultural community, Port Isabel has since broadened its customer base. Today, the Port Isabel seeks to provide competitive transportation costs and provide industrial lands for development.

Located at the southernmost point in Texas, Port Isabel serves South and Central America and Mexico as well as the United States. About 45 of Port Isabel's 726 acres of waterfront are available for lease. The Industrial Development Corporation at Port Isabel promotes development by issuing tax-free bonds.

Port Isabel can accommodate the deep-draft supply vessels serving the offshore oil industry. Facilities at Port Isabel include 350 meters (1150 feet) of deep-water docks and 640 meters (2100 feet) of deep-water frontage. There are about 1.2 acres of warehouse space available in the Port Isabel. Services and facilities at Port Isabel include independent stevedores, pilots, tugs, bunkering services, and line handlers. Port Isabel contractors also provide large vessel repair services.

The Port Isabel-San Benito Navigation District of Cameron County owns and operates the General Cargo Wharf to ship and receive foreign and domestic cargo and to moor vessels for repair. There are about 2.3 acres of open storage located on the wharf, and there is an 1858-square-meter (20-thousand-square-foot) warehouse located at the rear. The Port Isabel General Cargo Wharf has berthing distance of 152.4 meters (500 feet) with alongside depth of 10.4 meters (34 feet).

The Port Isabel-San Benito Navigation District owns and operates the Low Dock in the Port Isabel Turning Basin to board passengers and moor cruise and other vessels. The Low Dock in Port Isabel has berthing distance of 183 meters (600 feet) with alongside depth of 5.5 meters (18 feet). An elevated ramp for passengers is located at the center of the wharf, and the ticket office and passenger lounge are located at the rear.

The Port Isabel-San Benito Navigation District owns and operates the Port Isabel Cement Dock to receive cement. The Cement Dock has berthing distance of 91.4 meters (300 feet) with alongside depth of 5.5 meters (18 feet). There is open storage of about four acres at the rear of the dock.

The Port Isabel-San Benito Navigation District owns and operates the Port Isabel Roll-on/Roll-off Wharf to ship and receive ro-ro general cargo, vehicles, and heavy machinery. With berthing distance of 152.4 meters (500 feet) and alongside depth of 9.1 meters (30 feet), the RO-RO Wharf at Port Isabel has open storage capacity for 100 vehicles, and additional storage space for about 500 vehicles is located within the Port Isabel complex.

The US Coast Guard operates the federal US Coast Guard Station at Port Isabel Piers to moor government-owned vessels. The Coast Guard Amberjack is based at the Port Isabel Piers. The pier is connected by fueling pipeline to a 500-gallon steel storage tank at the rear of the pier. The Port Isabel Piers has three berthing stations with depths of 1.8 and 2.4 meters (six and eight feet). The berthing stations have berthing distance of 73.2 meters (240 feet), 48.8 meters (160 feet), and 24.4 meters (80 feet).

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