The Horton River is a river in Inuvik and Sahtu Regions, Northwest Territories and Kitikmeot Region, Nunavut, Canada. It is a tributary of the Beaufort Sea and hence part of the Arctic Ocean drainage basin. Only the first few kilometres from its source are within Nunavut.

The river begins at a small lake about 100 kilometres (62 mi) north of the northeast Dease Arm of Great Bear Lake. It passes through the Smoking Hills and reaches its mouth on the east side of Cape Bathurst at Franklin Bay on the Amundsen Gulf of the Beaufort Sea, where it forms a small delta, about 125 kilometres (78 mi) northwest of the community of Paulatuk. The mouth had been 100 kilometres (62 mi) further north at Harrowby Bay on the west side of Cape Bathurst until about 1800 when a meander eroded through.

There is an airstrip just north of the mouth.

Located about 8.5 km (5.3 mi) north northwest of the rivers mouth, at 70°00′59″N 126°56′35″W / 70.01639°N 126.94306°W / 70.01639; -126.94306 (Horton River SRR BAR-E), lies the Horton River Short Range Radar Site (BAR-E), also known as Malloch Hills. Originally opened as a Distant Early Warning Line site it closed in 1963. The site was reopened in 1991 as a North Warning System short range radar.

• List of longest rivers of Canada
• List of rivers of the Northwest Territories

• Inuvialuit Television's documentary on the Horton River DEW Line site cleanup