Here are lists of the birds and mammals I saw or heard on the trip. Other people saw some of the species listed as heard-only. I didn't include heard-only species that I've never seen before.

If the order seems a little strange, it's because it is my own interpretation of current information about what the taxonomic order should be (TiF Checklist). Life birds are in bold.

BIRDS (290 taxa)

Non-passerines

Andean (Ruddy) Duck
Torrent Duck
Yellow-billed Pintail
Andean Teal
Andean Guan
Silvery Grebe
Eared Dove
White-throated Quail-Dove
Band-tailed Pigeon
Plumbeous Pigeon
Ruddy Pigeon
Rock Pigeon
Black-winged Ground-Dove
Common Potoo
Swallow-tailed Nightjar
Lyre-tailed Nightjar
Chestnut-collared Swift
White-collared Swift
White-necked Jacobin
White-whiskered Hermit
Green-fronted Lancebill
Wedge-billed Hummingbird
Brown Violetear
Green Violetear
Sparkling Violetear
Tourmaline Sunangel
Green Thorntail
Speckled Hummingbird
Long-tailed Sylph
Violet-tailed Sylph
Black-tailed Trainbearer
Ecuadorian Hillstar
Blue-mantled Thornbill
Rainbow-bearded Thornbill
Tyrian Metaltail
Sapphire-vented Puffleg
Golden-breasted Puffleg
Shining Sunbeam
Bronzy Inca
Brown Inca
Collared Inca
Buff-winged Starfrontlet
Mountain Velvetbreast
Sword-billed Hummingbird
Great Sapphirewing
Buff-tailed Coronet
Chestnut-breasted Coronet
Velvet-purple Coronet
Booted Racket-tail
Purple-bibbed Whitetip
Fawn-breasted Brilliant
Green-crowned Brilliant
Empress Brilliant
White-bellied Woodstar
Purple-throated Woodstar
Western Emerald
Green-crowned Woodnymph
Rufous-tailed Hummingbird
Andean Emerald
Smooth-billed Ani
Squirrel Cuckoo
Slate-colored (Andean) Coot
Black-faced Ibis
Cattle Egret
Southern Lapwing
Andean Lapwing
Andean Gull
Turkey Vulture
Black Vulture
Andean Condor
Roadside Hawk
White-rumped Hawk
Black-chested Buzzard-Eagle
Variable Hawk
Cloud-forest Pygmy-Owl
Rufous-banded Owl
Great Horned Owl
Golden-headed Quetzal
Masked Trogon
Collared Trogon
Blue-tailed (Choco) Trogon
Broad-billed Motmot
Andean (Highland) Motmot
Ringed Kingfisher
White-whiskered Puffbird
Toucan Barbet
Red-headed Barbet
Choco Toucan
Pale-mandibled Aracari
Plate-billed Mountain-Toucan
Crimson-rumped Toucanet
White-throated (Emerald) Toucanet
Crimson-mantled Woodpecker
Golden-olive Woodpecker
Powerful Woodpecker
Guayaquil Woodpecker
Smoky-brown Woodpecker
Carunculated Caracara, #2
American Kestrel
Aplomado Falcon
Red-billed Parrot
White-capped (Speckle-faced) Parrot
Bronze-winged Parrot

Passerines

Golden-winged Manakin
White-bearded Manakin (heard only)
Club-winged Manakin
Green-and-black Fruiteater
Barred Fruiteater
Orange-breasted Fruiteater
Andean Cock-of-the-rock
Red-crested Cotinga
Tawny-breasted Flycatcher
Cinnamon Becard
Barred Becard
One-colored Becard
Rufous-breasted Flycatcher
Streak-necked Flycatcher
Marble-faced Bristle-Tyrant
Rufous-crowned Tody-Flycatcher
Scale-crested Pygmy-Tyrant
Ornate Flycatcher
Cinnamon Flycatcher
Handsome Flycatcher
Choco (Golden-faced) Tyrannulet
Golden-faced Tyrannulet
Black-capped Tyrannulet
Tawny-rumped Tyrannulet
White-tailed Tyrannulet
White-banded Tyrannulet
Rufous-winged Tyrannulet
Sulphur-bellied Tyrannulet
White-crested Elaenia
White-throated Tyrannulet
Tufted Tit-Tyrant
Torrent Tyrannulet
Pale-edged Flycatcher
Lemon-browed Flycatcher
Golden-crowned Flycatcher
Snowy-throated Kingbird
Tropical Kingbird
Vermilion Flycatcher
Masked Water-Tyrant
Flavescent Flycatcher
Crowned Chat-Tyrant
Brown-backed Chat-Tyrant
Rufous-breasted Chat-Tyrant

Black Phoebe
Smoke-colored Pewee
Spot-billed Ground-Tyrant
Plain-capped (Paramo) Ground-Tyrant
Black-billed Shrike-Tyrant
White-tailed Shrike-Tyrant
Russet Antshrike
Rufous-tailed Antwren
Slaty Antwren
Immaculate Antbird
Ochre-breasted Antpitta
Giant Antpitta, #2
Moustached Antpitta
Chestnut-naped Antpitta (heard only)
Yellow-breasted Antpitta
White-bellied Antpitta
Rufous Antpitta (heard only)
Tawny Antpitta
Ocellated Tapaculo
Blackish (Unicolored) Tapaculo
Long-tailed (Equatorial Rufous-vented) Tapaculo
Spillmann's Tapaculo
Rufous-breasted Antthrush
Wedge-billed Woodcreeper
Tyrannine Woodcreeper
Strong-billed Woodcreeper
Spotted Woodcreeper
Montane Woodcreeper
Plain Xenops
Streaked Xenops
Streak-capped Treehunter
Scaly-throated Foliage-gleaner
Lineated Foliage-gleaner
Buff-fronted Foliage-gleaner
Pearled Treerunner
Streaked Tuftedcheek
Chestnut-winged (Bar-winged) Cinclodes
Stout-billed Cinclodes
Andean Tit-Spinetail
Many-striped Canastero
Red-faced Spinetail
Ash-browed Spinetail
Azara's Spinetail
Black-billed Peppershrike
Lesser Greenlet
Brown-capped Vireo
Red-eyed Vireo
Turquoise Jay
Inca Jay
White-thighed Swallow
Blue-and-white Swallow
Brown-bellied Swallow
Southern Rough-winged Swallow
Gray-mantled Wren
Grass (Sedge) Wren
Mountain Wren
Southern House-Wren (heard only)
Band-backed Wren
Rufous Wren
Sharpe's (Sepia-brown) Wren
Bay Wren (heard only)
Gray-breasted Wood-Wren (heard only)
Plain-tailed Wren
White-capped Dipper
Black-billed Thrush
Great Thrush
Glossy-black Thrush
Paramo Pipit
Thick-billed Euphonia
Orange-bellied Euphonia
Hooded Siskin
Olivaceous Siskin
Olive-crowned Yellowthroat
Tropical Parula
Choco (Golden-bellied) Warbler
Russet-crowned Warbler
Black-crested Warbler
Buff-rumped Warbler
Three-striped Warbler (heard only)
Slate-throated Whitestart
Spectacled Whitestart
Red-breasted Blackbird
(Northern) Mountain Cacique
Subtropical (Scarlet-rumped) Cacique
Russet-backed Oropendola
Yellow-throated Bush-Tanager
Yellow-breasted (Common) Bush-Tanager
Dusky Bush-Tanager
Yellow-browed Sparrow
Orange-billed Sparrow
Rufous-collared Sparrow
Pale-naped Brush-Finch
Choco (Tricolored) Brush-Finch
Yellow-breasted (Rufous-naped) Brush-Finch
Slaty Brush-Finch
White-winged Brush-Finch
Ochre-breasted Tanager
Golden-bellied (Southern Yellow) Grosbeak
Black-winged Saltator
Bananaquit
Blue-and-black Tanager
Beryl-spangled Tanager
Saffron-crowned Tanager
Flame-faced Tanager
Golden Tanager
Silver-throated Tanager
Golden-naped Tanager
Blue-gray Tanager
Blue-necked Tanager
Black-capped Tanager
Buff-breasted Mountain-Tanager
Hooded Mountain-Tanager
Grass-green Tanager
Black-chested Mountain-Tanager
Blue-capped Tanager
Blue-winged Mountain-Tanager
Scarlet-bellied Mountain-Tanager
Swallow Tanager
Purple Honeycreeper
Gray-hooded Bush Tanager
Black-eared Hemispingus
Western (Black-eared) Hemispingus (subsp.)
Superciliaried Hemispingus
White-capped Tanager
Green Honeycreeper
White-lined Tanager
Flame-rumped Tanager
Variable Seedeater
Yellow-bellied Seedeater
Giant Conebill
Cinereous Conebill
Blue-backed Conebill
Capped Conebill
Band-tailed Seedeater
Plain-colored Seedeater
Plumbeous Sierra-Finch
Ash-breasted Sierra-Finch
Bluish Flower-piercer
Masked Flower-piercer
Glossy Flower-piercer
White-sided Flower-piercer
Black Flower-piercer
Black-backed Bush Tanager
Plushcap

Mammals (6)

White-eared Opossum, Didelphis albiventris
Andean Fox (Culpeo), Lycalopex culpaeus
Neotropical River Otter, Lontra longicaudis
Brazilian Rabbit, Sylvilagus brasiliensis
Red-tailed Squirrel, Sciurus granatensis
Amazon Red Squirrel, Sciurus igniventris/spadiceus