A Christian fundamentalist who vigorously fought the construction of a Canberra mosque has controversially linked the development with the kidnapping of Nigerian schoolgirls and the Boston Marathon bombing.

Speaking after losing a long-running court battle against the mosque on Friday, Concerned Citizens of Canberra president Irwin Ross said he did not have a problem with the capital's Muslim community, but rather "what's operating behind them".

"There's a lot of good Muslim people, I know some of them," Mr Ross said.

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