The Church has a legitimate role as a sanctuary. These people should not be dragged out of there if they are not threatening others.
I may be old-fashined, but police, army and the like have no business in a church if not invited in.
Churches are sanctuaries, their sanctity must be preserved.
But they aren't sactuaries, legally speaking. If it's illegal to smoke pot on the street, it's still illegal to smoke pot in a church. If (and it's not clear from the article if this is the case) laws have been broken then the police have the right to enforce the law. The authority of the state transcends whatever 'sanctuary' is emotionally conveyed on a building.