Pembina is a rural municipality in the province of Manitoba in Western Canada. It is located in the southern part of the province, along the border with the state of North Dakota in the United States. It had a population of 1,712 persons as of the 2006 Census, a decline from 1,769 persons reported in the 2001 Census. The town of Manitou lies geographically within the municipality, although it is administratively separate from it. The Boundary Trail Railway is part owned by the rural municipality and serves local producers.
Pembina is historically famous for the setting of the final (last?) invasion of Canada from neighbouring US, performed by the Fenian Brotherhood in 1871. the Archibald Museum is located in Manitou.
According to Statistics Canada, the rural municipality has an area of 1,114.76 km² (430.41 sq mi). The administratively separate town of Manitou is enclaved by Pembina, at a little north of its centre.