| Old River | Washington, FL | 8 miles | SW |
| Alberson Stretch | Holmes, FL | 11.6 miles | NW |
| Roaring Cutoff | Walton, FL | 15.6 miles | SW |
| Boynton Cutoff | Washington, FL | 20.7 miles | SW |
| Little Boynton Cutoff | Washington, FL | 21 miles | SW |
| Grand Lagoon Channel | Bay, FL | 45.9 miles | SE |
| Griffith Ferry Stretch | Okaloosa, FL | 49.1 miles | SW |
| North Channel | Okaloosa, FL | 51.2 miles | SW |
| East Pass | Okaloosa, FL | 51.6 miles | SW |
| Porter Reach | Liberty, FL | 59.4 miles | SE |
| Magnolia Slough | Gulf, FL | 62.6 miles | SE |
| Tom Smith Branch | Gulf, FL | 62.7 miles | SE |
| The Narrows | Okaloosa, FL | 63.2 miles | SW |
| Upper Piney Reach | Liberty, FL | 66.1 miles | SE |
| Rooted Devil | Liberty, FL | 67.2 miles | SE |
| Lower Piney Reach | Liberty, FL | 68 miles | SE |
| Coffee Branch | Liberty, FL | 75.1 miles | SE |
| Revell Branch | Liberty, FL | 82.9 miles | SE |
| Hodges Branch | Liberty, FL | 83.6 miles | SE |
| Double Branches | Liberty, FL | 84.3 miles | SE |
| Saul Creek Cut Off | Gulf, FL | 84.5 miles | SE |
| East River Cut Off | Franklin, FL | 84.8 miles | SE |
| Seedland Cutoff | Escambia, FL | 85 miles | SW |
| Cebe Land Cutoff | Santa Rosa, FL | 85 miles | SW |
| Swift Slough | Liberty, FL | 85.1 miles | SE |
| Saultsman Cutoff | Santa Rosa, FL | 85.2 miles | SW |
| Indian Pass | Gulf, FL | 85.9 miles | SE |
| Four Tree Cut Off | Franklin, FL | 87.3 miles | SE |
| East Channel | Escambia, FL | 88.6 miles | SW |
| Inner Harbor Channel | Escambia, FL | 88.8 miles | SW |
| West Channel | Escambia, FL | 89.1 miles | SW |
| Scipio Creek Channel | Franklin, FL | 89.8 miles | SE |
| Bay Channel | Santa Rosa, FL | 90.3 miles | SW |
| Two Mile Channel | Franklin, FL | 91 miles | SE |
| West Pass | Franklin, FL | 92.4 miles | SE |
| Charlie McKissack Cut | Franklin, FL | 94.6 miles | SE |
| East Pass | Franklin, FL | 98.3 miles | SE |
| Johns Creek | Wakulla, FL | 105.8 miles | SE |
| Little Pass | Wakulla, FL | 106.9 miles | SE |
| Indian Pass | Wakulla, FL | 107.4 miles | SE |
| Big Pass | Wakulla, FL | 107.5 miles | SE |
| Boggy Bayou | Wakulla, FL | 108.7 miles | SE |
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