The Government was unhappy with them because they were occupying the capital, blocking border crossings, and their MOU demanded that Parliament be dissolved, and that Senators and Bureaucrats who disagreed with the MOU resign; under the threat of the Governor General not allowing Parliament to sit again.
It was entirely warranted to freeze their accounts and make arrests.
And when other protests like BLM caused huge public disruption during a pandemic the government did nothing. It was entirely a political response.
In a free society people should be able to protest whatever in public without getting arrested and debanked. Otherwise you might as well be one of those authoritarian countries where protesting requires a permit.
Different country, different Government, different protests.
BLM was a nothingburger in Canada. The most similar protests to that would have been the Wet'suwet'en solidarity protests. Those lasted a few weeks and were ultimately resolved peacefully, for the most part. An important thing to consider is that the protestors weren't interested in toppling the Government; they simply wanted the Government to hear them.
It was entirely warranted to freeze their accounts and make arrests.