| Alazan Bay |
| Alligator Lake |
| Allyns Bight |
| Aransas Bay |
| Aransas Channel |
| Arroyo Colorado |
| Ash Lake |
| Ayres Bay |
| Baffin Bay |
| Barnett Lake |
| Barroom Bay |
| Bastrop Bay |
| Big Brundrett Lake |
| Black Duck Bay |
| Boggy Lake |
| Bolivar Roads |
| Brazos River |
| Brazos Santiago Channel |
| Brown Cedar Cut |
| Brownsville Ship Channel |
| Bryan Lake |
| Burnett Bay |
| Cabin Lake |
| Carancahua Bay |
| Carancahua Lake |
| Carlos Bay |
| Cayo Del Grulla |
| Cedar Bayou |
| Cedar Lake |
| Cedar Lakes |
| Chocolate Bay |
| Choctaw Lake |
| Christmas Bay |
| Clam Lake |
| Clear Lake |
| Colorado River |
| Contee Lake |
| Coon Island Bay |
| Copano Bay |
| Corpus Christi Bay |
| Corpus Christi Channel |
| Corpus Christi Pass |
| Cotton Lake |
| Cow Trap Lakes |
| Cox Bay |
| Cox Lake |
| Crab Lake |
| Crystal Bay |
| Dickinson Bay |
| Dollar Bay |
| Drum Bay |
| Dunham Bay |
| East Bay |
| East Matagorda Bay |
| El Realito Bay |
| Espiritu Santo Bay |
| Fence Lake |
| Freeport Bay Area |
| Freshwater Lake |
| Galveston Bay |
| Gottschalk Lake |
| Green's Lake |
| Guadalupe Bay |
| Hall's Lake |
| Harbor Island |
| Horseshoe Lake |
| Hynes Bay |
| Johnson Lake |
| Jones Bay |
| Jones Lake (Freeport area) |
| Keith Lake |
| Keller Bay |
| Kilbride Lake |
| Knight Lake |
| Laguna Salada |
| Lake Austin |
| Lake Como |
| Lavaca Bay |
| Little Bay |
| Little Brundrett Lake |
| Live Oak Bay |
| Long Lake (Aransas Bay) |
| Long Lake (Aransas Wildlife Refuge) |
| Long Lake (Guadalupe River Delta) |
| Long Lake (Matagorda Island) |
| Lost Bay |
| Lost Lake |
| Lower Laguna Madre |
| Lucas Lake |
| Lydia Ann Channel |
| Mad Island Lake |
| Matagorda Bay |
| Matagorda Ship Channel |
| McNabb Lake |
| McNeal Lake |
| Mesquite Bay |
| Mission Bay |
| Mission Lake |
| Moses Lake |
| Mud Lake |
| Mud Lake (High Island area) |
| Mud Lake (Sabine Pass Area) |
| Mustang Lake |
| Nick's Lake |
| Nueces Bay |
| Old Brazos River |
| Oso Bay |
| Oyster Creek |
| Oyster Lake |
| Oyster Lake (Matagorda Bay) |
| Panther Point Lake |
| Pass Cavallo |
| Pats Bay |
| Pelican Lake |
| Pelton Lake |
| Peters Lake |
| Port Aransas Pass |
| Port Bay |
| Port Mansfield Channel |
| Powderhorn Lake |
| Power Lake |
| Pringle Lake |
| Quintana Channel |
| Redfish Bay |
| Redfish Bay (Aransas Bay system) |
| Redfish Bay (Corpus Christi Bay) |
| Redfish Lake (Carancahua Bay) |
| Redfish Lake (Lavaca River) |
| Rio Grande |
| Robbins Lake |
| Rollover Bay |
| Rollover Pass |
| Sabine Lake |
| Sabine Lake Area |
| Sabine Pass |
| Salt Lake (Aransas Bay) |
| Salt Lake (Carancahua Bay) |
| Salt Lake (Galveston Bay) |
| Salt lake |
| San Antonio Bay |
| San Bernard River |
| San Jacinto Bay |
| San Luis Pass |
| San Martin Lake |
| Scott Bay |
| Shell Lake |
| Shoalwater Bay |
| South Bay |
| Southpass Lake |
| St. Charles Bay |
| Star Lake |
| Sundown Bay |
| Sunset Lake |
| Swan Lake |
| Swan Lake (Aransas Bay) |
| Swan Lake (Freeport Area) |
| Swan Lake (Guadalupe Delta) |
| Swan Lake (Lavaca River) |
| Swan Lake (Matagorda Island) |
| Sweetwater Lake |
| Tabbs Bay |
| Taylor Lake |
| Tres Palacios Bay |
| Trinity Bay |
| Turtle Bay |
| Twin Lakes |
| Upper Laguna Madre |
| Venado Lake |
| Water Exchange Channel |
| West Bay |
| Willow Lake |