Sub-watersheds, tributaries and other waterbodies within the Perdido Basin include the following:

Big Lagoon, Tarkiln Bayou, Bridge Creek, Marcus Creek, Bullshead Branch, Turner Creek, Hurst Branch, Eightmile Creek, Tenmile Creek, Elevenmile Creek, McDavid Creek, Coffee Branch, Hollinger Creek, Brushy Creek, Rock Creek, Wolf Creek, Negro Creek, Styx River, and Blackwater River.

The Styx River is one of the Perdido watersheds longest tributaries. The headwaters of the Styx begin just south of Bay Minette and flow in a southeasterly direction until joining the Perdido just south of Highway 90. A canoe outfitter called Styx River Canoes offers excellent trips along the river. They can be contacted at 334-960-1161.