Here's a complete (and much more accurate) update:
Entrance Exhibits:
-Hyacinth Macaw
-West African Black-crowned Crane
-Red-breasted Goose, Common Shelduck, African Sacred Ibis, Demoiselle Crane
-Wings of the World Aviary: African Openbill Stork, Abdim’s Stork, African Spoonbill, Hadada Ibis, Madagascar Crested Ibis, Waldrapp Ibis, Southern Bald Ibis, Sunbittern, White-headed Buffalo-weaver, Red-crested Turaco, Great Blue Turaco, Blue-bellied Roller, Northern Purple Roller, Hammerkop, White-crested Laughingthrush, Fairy-bluebird, Superb Starling, Surinam Crested Oropendola, Chinese Hwamei, Victoria Crowned-Pigeon, Pink Pigeon, Nicobar Pigeon, Green-Imperial Pigeon, Taveta Golden Weaver, Scaly-sided Merganser, Baikal Teal, Black-bellied Whistling-Duck, Edward’s Pheasant, Congo Peafowl, Reichenow’s Helmeted Guineafowl
Nairobi Village, Mombassa Lagoon, Hidden Jungle, and Surrounding Habitats:
-Chilean Flamingo, Lesser Flamingo, Southern Screamer, Swan Goose, Hawaiian Goose, Chiloe Wigeon, African Comb Duck
-Red-flanked Duiker
-Sand Cat
-Lesser Hedgehog Tenrec
-Pancake Tortoise
-Woma
-Woma (2nd terrarium)
-Madagascar Tree Boa
-Yellow-crowned Bishop, Golden-breasted Starling, Malay Great Argus Pheasant, White-crested Laughingthrush, Fischer’s Lovebird
-Nursery: Nile Lechwe, Red-flanked Duiker. Desert Bighorn Sheep
-African Pygmy Goat, Boer Goat, Jacob Sheep
-Southern Pudu
-East African Grey-crowned Crane
-Chacoan Peccary
-Red-crested Pochard, Bar-headed Goose, Swan Goose, White-faced Whistling Duck, Pink-backed Pelican, Coscoroba Swan, Blue Crane, Orinoco Goose, Black-crowned Night-heron, Mallard, Northern Pintail, White-breasted Cormorant
-Northern Sulawesi Babirusa
-Dwarf Mongoose
-Magpie Goose, Bar-headed Goose, Hawaiian Goose, Red-breasted Goose, Demoiselle Crane
-Rodrigues Fruit Bat (temporarily off-habitat)
-Rainbow Lorikeet
-Hidden Jungle Aviary #1: Speckled Mousebird, Pin-tailed Whydah, Gouldian Finch, Swallow Tanager, African Fire-finch, Spangled Cotinga, African Pygmy Goose, Blue-capped Cordon-bleu, Luzon Bleeding-heart Dove, Violaceous Euphonia, Golden-fronted Leafbird, Purple Grenadier, Northern Red Bishop, Red-billed Leiothrix
-Hidden Jungle Aviary #2: Emerald Starling, Bali Myna, Speckled Mousebird, White-headed Buffalo-weaver, Chinese Hwamei, Blue-crowned Laughingthrush, Green-naped Pheasant-pigeon, Blue-billed Teal, White-headed Duck, Green Honeycreeper, Sunbittern, Spur-winged Lapwing, Turquoise Tanager, Taveta Golden Weaver
Gorillas, African Woods, and African Loop:
-White-fronted Bee-eater, Chestnut-backed Thrush, Luzon Bleeding-heart Dove
-Western Lowland Gorilla
-Red-cheeked Gibbon
-Slender-horned Gazelle
-Addax, Addra Gazelle
-Egyptian Vulture, Hooded Vulture, Common Shelduck
-Okapi
-Gerenuk, Demoiselle Crane, Abyssinian Ground Hornbill, Red-flanked Duiker
-Blue Crane, Egyptian Goose, Yellow-billed Stork
-Secretary Bird, European White Stork
-Lappet-faced Vulture, Rüppell's Vulture
-Common Warthog
-Southern Ground Hornbill
-Lesser Flamingo
-Marabou Stork
-South African Cheetah, Domestic Dog
-Abdim’s Stork, White-faced Whistling Duck, Red-flanked Duiker, Southern Steenbok, East African Sitatunga
African Plains and Surrounding Habitats:
-Lowland Nyala
-East African Grey-crowned Crane, Southern White Rhinoceros, Fringe-eared Oryx, Cape Buffalo, Generic Giraffe, Nile Lechwe, Kenya Impala, White-bearded Wildebeest, Defassa Waterbuck, Thomson's Gazelle, Uganda Kob
-Greater Flamingo
-Saddle-billed Stork, West African Black-crowned Crane, Abyssinian Ground Hornbill
-Southern White Rhinoceros
-Southern Ground Hornbill
-Greater White Pelican, Dalmatian Pelican, Springbok, Sable Antelope, Gemsbok, Masai Giraffe, Ellipsen Waterbuck, Cape Buffalo, Patterson’s Eland
-Cape Buffalo (former Grevy's Zebra enclosure, zebra may still be there but didn't see any)
-Yellow-billed Stork, Rüppell's Vulture, Crowned Crane (which species?)
-Soemmering’s Gazelle
-Somali Wild Ass, Dromedary Camel
-Eastern Black Rhinoceros, Roan Antelope, Greater Kudu, Uganda Kob, Grevy’s Zebra, East African Sitatunga
-Red Lechwe, Roan Antelope, East African Sitatunga, Eastern Mountain Bongo, Red-fronted Gazelle
-Barbary Deer, Scimitar-horned Oryx, Bactrian Deer, Ankole Cattle, Defassa Waterbuck
-African Lion (currently no lions but there will be more soon)
-African Elephant
Walkabout Australia, Tiger Trail, Condor Ridge, and Surrounding Habitats:
-Western Grey Kangaroo, Red-necked Wallaby, Magpie Goose, Radjah Shelduck, Freckled Duck, Australian Wood Duck
-Platypus
-Matschie’s Tree Kangaroo
-Southern Cassowary
-Southern Cassowary (second enclosure)
-Sumatran Tiger
-Thick-billed Parrot
-Bald Eagle
-Ocellated Turkey, Toco Toucan
-Guianan Toucanet, Grey-winged Trumpeter
-Harris’s Hawk
-Western Burrowing Owl, Desert Tortoise
-Desert Bighorn Sheep
-California Condor
Asian Savanna:
Note: I do not know which species live with what so this is just a list of species that I received from Kudu21 a while back.
-Indian Rhinoceros
-Przewalski's Wild Horse
-Barasingha
-Eld's Deer
-White-lipped Deer
-Malayan Sambar
-Manchurian Sika
-Pere David's Deer
-Turkmenian Markhor
-Transcaspian Urial
-Blackbuck
-Nilgai
-Javan Banteng
-Vietnamese Sika
-Indian Sambar
-Arabian Oryx
-Nubian Ibex
-Kordofan Aoudad
-North Indian Muntjac