The following is a list of ecoregions in South Sudan, as identified by the Worldwide Fund for Nature (WWF).

Terrestrial ecoregions

by major habitat type

Tropical and subtropical moist broadleaf forests

• East African montane forests

Tropical and subtropical grasslands, savannas, and shrublands

• East Sudanian savanna
• Northern Acacia–Commiphora bushlands and thickets
• Northern Congolian forest–savanna mosaic
• Sahelian Acacia savanna
• Victoria Basin forest–savanna mosaic

Flooded grasslands and savannas

• Saharan flooded grasslands

Freshwater ecoregions

• Upper Nile
• Lake Turkana