The governments of Canada and Ontario will each contribute 41.8 million Canadian dollar over three years.
The investment will enable the facility to assemble new models of the Civic and the CR-V vehicles.
The Japanese automotive group will also construct a new paint shop that will help cut greenhouse gas emissions from the paint process by 44 per cent, Honda Canada CEO Jerry Chenkin said.
The improvements will help save 4,000 jobs at Honda's facilities - which assembled 385,000 vehicles last year - and "further anchor Honda's presence in Canada," the government of Canada said in a statement.
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Signed by Canada, the United States and Mexico, the agreement went into force in 1994.
Trump has so far held off criticising investments in Canada, where labour costs are similar to those in the United States. Manufacturers with facilities in Canada have also relocated plants to Mexico thanks to NAFTA.
The Republican billionaire, who has vowed to renegotiate NAFTA, is "a potential risk" for the Canadian automotive industry, Ontario Economic Development Minister Brad Duguid said yesterday.
The three major American automakers committed to investing 1.5 billion dollars in their plants in Ontario when they reached collective bargaining agreements with employees last year.