Tabel Daftar Mamalia di TN Kutai
| NO. | Famili | Nama Ilmiah | Nama Daerah |
| 1 | Cercopithecidae | Macaca fascicularis | Warik, kera ekor panjang |
| 2 |
| Macaca nemestrina | Beruk, bokoi |
| 3 |
| Nasalis larvatus | Bekantan, kera belanda |
| 4 |
| Presbytis cristata | Lutung biasa, hirangan |
| 5 |
| Presbytis hosei | Lutung abu-abu |
| 6 |
| Presbytis rubicunda | Lutung merah, kelasi |
| 7 |
| Presbytis frontata | Lutung dahi putih |
| 8 | Hylobatidae | Hylobates muelleri | Owa-owa, kelawat |
| 9 | Lorisadae | Nycticebus coucang | Kukang, malu-malu |
| 10 | Pongidae | Pongo pygmaeus | Orangutan, mawas |
| 11 | Tarsiidae | Tarsius bancanus | Binatang hantu darat |
| 12 | Felidae | Felis bengalensis | Kucing batu, kucing dahan |
| 13 |
| Felis marmorata | Kucing bulu |
| 14 |
| Felis planiceps | Kucing hutan |
| 15 |
| Neofelis nebulosa | Macan dahan |
| 16 | Mustelidae | Aonyx cinerea | Berang-berang cakar kecil, sero ambrang |
| 17 |
| Lutra perspicillata | Berang-berang bulu licin, berang-berang wergul |
| 18 |
| Martes flavigula | Musang leher kuning |
| 19 |
| Mustela nudipes | Musang pisang |
| 20 | Ursidae | Helarctos malayanus | Beruang madu |
| 21 | Viverridae | Arctictis binturong | Binturong |
| 22 |
| Arctogalidia trivirgata | Musang akar |
| 23 |
| Cynogale bennettii | Musang air |
| 24 |
| Hemigalus derbyanus | Musang belang, musang tekalong |
| 25 |
| Herpestes brachyurus | Garangan ekor pendek |
| 26 |
| Herpestes semitorquatus | Garangan leher merah |
| 27 |
| Paguma larvata | Musang merah |
| 28 |
| Paradoxurus hermaphroditus | Musang biasa, luwak |
| 29 |
| Prionodon linsang | Linsang, musang cangkok |
| 30 |
| Viverra tangalunga | Tenggalong |
| 31 | Bovidae | Bos javanicus | Tembadau, banteng |
| 32 | Cervidae | Cervus unicolor | Rusa, payau, |
| 33 |
| Muntiacus atherodes | Kijang |
| 34 |
| Muntiacus muntjak | Kijang |
| 35 | Suidae | Sus barbatus | Babi jenggot |
| 36 | Tragulidae | Tragulus javanicus | Kancil |
| 37 |
| Tragulus napu | Napu |
| 38 | Hystricidae | Hystrix brachyura | Landak biasa |
| 39 |
| Thecurus crassipinis | Landak borneo duri tebal |
| 40 | Muridae | Chiropodomys muroides | Nyingnying perut kelabu |
| 41 |
| Haeromys margarettae | Tikus ranee |
| 42 |
| Maxomys rajah | Tikus duri coklat |
| 43 |
| Maxomys whiteheadi | Tikus ekor pendek |
| 44 |
| Rattus argentiventer | Tikus sawah |
| 45 |
| Rattus rattus | Tikus rumah |
| 46 |
| Rattus tiomanicus | Tikus belukar |
| 47 | Sciuridae | Aeromys tephromelas | Tupai terbang hitam |
| 48 |
| Aeromys thomasi | Tupai terbang merah |
| 49 |
| Callosciurus notatus | Bajing kelapa |
| 50 |
| Callosciurus orestes |
|
| 51 |
| Callosciurus prevostii | Bajing bergaris putih |
| 52 |
| Exilisciurus exilis | Bajing kerdil pukang |
| 53 |
| Lariscus insignis | Bajing tanah bergaris tiga |
| 54 |
| Nannosciurus melanotes | Bajing kerdil pilis |
| 55 |
| Petaurista petaurista | Bajing terbang merah |
| 56 |
| Petynomis genibarbis | Bajing terbang berjambang |
| 57 |
| Ratufa affinis | Bajing besar |
| 58 |
| Sundasciurus hippurus | Bajing ekor kuda |
| 59 |
| Sundasciurus lowii | Bajing ekor pendek |
| 60 |
| Sundasciurus tenuis | Bajing kecil ramping |
| 61 | Manidae | Manis javanica | Trenggiling |
| 62 | Erinaceidae | Echinosorex gymnurus | Tikus bulan |
| 63 | Soricidae | Suncus murinus | Celurut rumah |
| 64 | Tupaiidae | Tupaia glis | Tupai moncong besar |
| 65 |
| Tupaia minor | Tupai kecil |
| 66 |
| Tupaia tana | Tupai tanah |
| 67 | Cynocephalidae | Cynocephalus variegatus | Tando, kubung pelanduk |
| 68 | Pteropodidae | Cynpteros brachyotis | Codot barong |
| 69 |
| Eonycteris major | Codot fajar besar |
| 70 |
| Eonycteris spelaea | Codot fajar guha |
| 71 |
| Macroglossus minimus | Codot bunga |
| 72 |
| Megaerops ecaudatus | Codot tidak berekor |
| 73 |
| Pteropus vampyrus | Kalong buah |
| 74 | Emballonuridae | Taphozous saccolaimus | Kelelawar ekor trubus besar |
| 75 | Rhinolophidae | Rhinolophus borneensis | Kelelawar ladam borneo |
| 76 |
| Rhinolophus creaghi | Kelelawar ladam creagh |
| 77 | Hipposideridae | Hipposideros cervinus | Kelelawar barong |
| 78 |
| Hipposideros diadema | Kelelawar barong besar |
| 79 | Verspertilionidae | Minipterus australis | Kelelawar mini |
| 80 |
| Minipterus medius | Kelelawar mini |
Tabel Daftar Reptilia di TN Kutai
| NO. | FAMILI | NAMA ILMIAH | NAMA LOKAL |
| 1 | Crocodylidae | Crocodylus porosus | Buaya muara |
| 2 |
| Tomistoma schlegellii | Buaya senyulong |
| 3 | Varanidae | Varanus salvator | Biawak |
| 4 | Boidae | Python reticulatus | Ular sawa |
