- Alafia River
- Alapaha River
- Alapahoochee River
- Alexander Springs Creek
- Amelia River
- Anclote River
- Apalachicola River
- Arlington River
- Aucilla River
- Banana River
- Barron River
- Bells River
- Big Marco River
- Billy Creek
- Black Creek
- Blackwater River
- Bonnet Creek
- Braden River
- Broad River
- Broward River
- Caloosahatchee River
- Carrabelle River
- Cedar River
- Chassahowitzka River
- Chatham River
- Chattahoochee River
- Chipola River
- Choctawhatchee River
- Cocohatchee River
- Crane Creek
- Crooked River
- Cross Creek
- Crystal River
- Cypress Creek
- Dead River (Kissimmee River)
- Dead River (Lake County, Florida)
- Doctors Lake
- Dunns Creek
- East Bay River
- East River
- Eau Gallie River
- Econfina Creek
- Econfina River
- Econlockhatchee River
- Elbow Creek
- Escambia River
- Estero River
- Fakahatchee River
- Fenholloway River
- Fisheating Creek
- Fort George River
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- Haines Creek
- Halifax River
- Harney River
- Henderson Creek
- Hillsboro River
- Hillsborough River
- Homosassa River
- Hontoon Dead River
- Huston River
- Ichetucknee River
- Imperial River
- Indian River
- Indian River North
- Istokpoga Creek
- Jackson River
- Joe River
- Julington Creek
- Kissimmee River
- Lake Jesup
- Lake Marion Creek
- Little Econlockhatchee River
- Little Manatee River
- Little River (Biscayne Bay)
- Little River (Ochlockonee River)
- Little Trout River
- Little Wekiva River
- Little Withlacoochee River
- Lopez River
- Lostmans River
- Loxahatchee River
- Manatee River
- Matanzas River
- Miami River
- Middle River
- Myakka River
- Myakkahatchee Creek
- Nassau River
- New River (Broward County)
- New River (Collier County)
- New River (Franklin County)
- New River (Pasco County)
- New River (Union/Bradford County)
- Ochlockonee River
- Ocklawaha River
- Oleta River
- Orange Creek
- Orange River
- Ortega River
- Pablo Creek
- Palatlakaha River
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- Palm River
- Pea River
- Peace River
- Perdido River
- Pinhook River
- Pithlachascotee River
- Pottsburg Creek
- Rainbow River
- Reedy Creek
- Ribault River
- Rice Creek
- Rodgers River
- Saint Sebastian River
- Salt Springs River
- San Sebastian River
- Santa Fe River
- Shark River
- Shell Creek
- Shingle Creek
- Shoal River
- Sisters Creek
- Snell Creek
- Sopchoppy River
- South Amelia River
- Spruce Creek
- St. Johns River
- St. Lucie River
- St. Marks River
- St. Marys River
- Steinhatchee River
- Stranahan River
- Suwannee River
- Taylor Creek
- Telogia Creek
- Thomas Creek
- Tolomato River
- Tomoka River
- Trout River
- Turkey Creek
- Turner River
- Waccasassa River
- Wacissa River
- Wakulla River
- Weeki Wachee River
- Wekiva River
- Whitney River
- Whittenhorse Creek
- Withlacoochee River (central Florida)
- Withlacoochee River (north Florida)
- Yellow River
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