A mainline station also once existed in Lansdowne but was torn down soon after CN abandoned service to the village, in 1966.

[1] The rail junction was relocated to the current station location in 1901 while timber shipments to Gananoque's docks were declining and tourism on the line was growing, with the Thousand Islands heavily promoted as a vacation destination by rail and steamship.

[2] The last passengers transferred from CN to the Thousand Island Railway at Gananoque Junction in 1962.

[3] Locomotive #500 from the now-defunct short line operation is on display next to Gananoque town hall; the Arthur Child Heritage Museum occupies the site of the former Gananoque waterfront station.

Gananoque station is only served by local trains on Via Rail's Toronto-Ottawa route.