Civic numbers do include all Civics but no Acura ELs. Of the 62,000 Civics sold last year in Canada I am guessing only a couple hundred were Hybrids, maybe 1000 SiR hatches, 7500 to 10,000 Coupes and probably 50,000 Sedans. I think the Matrix is counted as a separate car from the Corolla. So yes Honda does have more than one body style to sell and count towards their "best selling car in Canada" total. And yes, between Matrix, Corolla, and Echo, they collectively outsell Civic. But we are talking about name plates here not entire categories of car by manufacturer.
If Canada gets the Fit/Jazz early in 2006, I think it may cannibalize some Civic sales but with a brand new Civic expected to do 65,000 - 70,000 units, you could likely add another 10,000 of the Fit/Jazz if they import that many.