The following villages and towns were Iroquois, but the particular tribes to which they belonged are either unknown or are collective. To see town names specific to a tribe within the Iroquois Confederation, please see that tribe name itself.
- Adjouquay
- Allaquippa
- Anpuaqun
- Aquatsagana
- Aratumquat
- Awegen
- Blackleg’s Village
- Buckaloon
- Cahunghage
- Canowdowsa
- Caughnawaga
- Chartierstown
- Chemegaide
- Chenango
- Chinklacamoose
- Chugnut
- Churamuk
- Cocfocoraren
- Cokanuck
- Conaquanosshan
- Conejoholo
- Conemaugh
- Conihunta
- Connosomothdian
- Conoytown (mixed Conoy and Iroquois)
- Coreorgonel (mixed)
- Cowawago
- Cussewago
- Ganadoga
- Ganagarahhare
- Ganasarage
- Ganeraske
- Ganneious
- Gannentaha
- Glasswanoge
- Goshgoshunk (mixed)
- Grand River Indians
- Hickorytown (mixed)
- Janundat
- Jedakne
- Johnstown
- Jonondes
- Juniata
- Juraken (2)
- Kahendohon
- Kanaghsaws
- Kannawalohalla
- Kanesadageh
- Karaken
- Karhationni
- Karhawenradon
- Kayehkwarageh
- Kaygen
- Kente
- Kickenapawling
- Kiskiminetas
- Kittaning
- Kuskuski (mixed)
- Lawunkhannek
- Logstown
- Loyalhannon (?)
- Mahusquechikoken
- Mahican
- Mahoning
- Manckatawangum
- Matchasaung
- Middletown
- Mingo Town
- Mohanet
- Nescopeck
- Newtown (4 settlements)
- Newtychaning
- Octageron
- Ohrekionni
- Onaweron
- Onkwe Iyede
- Opolopong
- Oquaga
- Osewingo
- Oskawaserenhon
- Ostonwackin
- Oswegatchie
- Otiahanague
- Otsiningo
- Otskwirakeron
- Ousagwentera
- Owego
- Paille Coupfle
- Pluggy’s Town
- Punxatawney
- Runonvea
- Saint Regis
- Sawcunk
- Schoharie
- Schohorage
- Sconassi
- Scoutash’s Town
- Seneca Town
- Sevege
- Sewickly’s Old Town
- Shamokin
- Shannopin
- Shenango
- Sheshequin
- Sheoquage
- Sittawingo
- Skannayutenate
- Skenandowa
- Solocka
- Swahadowri
- Taiaiagon
- Tewanondadon
- Tioga
- Tohoguses Cabins
- Tullihas
- Tonihata
- Tuscarora
- Tuskokogie
- Tutelo
- Unadilla
- Venango
- Wakatomica
- Wakerhon
- Wauteghe
- Yoghroonwago
- Youcham
Catholic missions among the Iroquois were:
- Caughnawaga
- Indian Point
- La Montague
- La Prairie, Oka
- Oswegatchie
- St Regis
- Sault au Recollet