- Andaman Sea
- Banda-Flores Sea
- Bismarck-Solomon Seas
- Borneo Lowland and Montane Forests
- Central Range Subalpine Grasslands
- Central Sulawesi Lakes
- Greater Sundas Mangroves
- Lakes Kutubu and Sentani
- Moluccas Moist Forests
- New Guinea Mangroves
- New Guinea Montane Forests
- New Guinea Rivers and Streams
- Northern Australia and Trans-Fly Savannas
- Nusu Tenggara Dry Forests
- Peninsular Malaysian Lowland and Mountain Forests
- Southern New Guinea Lowland Forests
- Sulawesi Moist Forests
- Sulu-Sulawesi Seas
- Sumatran Islands Lowland and Montane Forests
- Sundaland Rivers and Swamps
- Western Java Mountain Forests