If it's an actual peaceful protest, that just involves people advocating for something in the public commons that doesn't disrupt the ability of anyone else to the use the public commons, then sure this is a reasonable point. I was responding to the person who said sarcastically "Yea, protest should happen where it doesn't bother anyone. Right.", who would likely not find that kind of actually-peaceful protest likely to be effective.
And I do actually want immediate arrest and physical removal to be the default first response in a situation like an effective protest. I do not want people to get away with disrupting the public commons and then claiming that they were justified in doing so because they were carrying out a protest. Indeed, I want the police to immediately arrest and physically remove anyone at all who is disrupting the public commons. The police are a weapon, and I want that weapon used effectively against people who disrupt the public commons, so that the public commons can be usable by everyone.