As of right now:
Ituri Forest:
Bongo
Okapi
Yellow-Backed Duiker
Greater Kudu
Black Rhino
Yellow-Billed Stork
Saddle-Billed Stork
Safi River:
Nile Hippo
Nile Crocodile
Pink-Backed Pelican
White-Faced Whistling Duck
White-Breasted Cormorant
Yellow-Billed Duck
Northern Pintailed Duck
West Savannah:
Patterson's Eland
Thomson's Gazelle
Reticulated Giraffe
Massai Giraffe
White-Bearded Wildebeest
Waterbuck
Ankole/Watusi Cattle
Sable Antelope
African Elephant
Mandrill (technically not in West Savannah)
Greater Flamingo
East Savannah:
Addax
Scimitar-Horned Oryx
Ostrich
Bontebok
Cheetah
Lion
Warthog
White Rhino
Zebras are currently in North Savannah, which is visible from the truck for about a half-second as you make the turn from Tilting Bridge into the Red Clay Pits. I have heard rumors about them returning to one of the main savannahs, but nothing concrete. Zebras are very visible at the Animal Kingdom Lodge, though.
Be aware that the animal spotting guide on the truck is rather out of date. There are several animals on the guide that are no longer on the ride, and several on the ride that aren't on the guide.