If the comment is off-topic/breaking the guidelines/rules, it should be removed, full stop.
The difference is that the bots comment should be removed regardless if the particular comment is breaking the rules or not, as HN specifically is a forum for humans. The humans comment, granted it doesn't break the rules, shouldn't, no matter how shitty their opinion/view is.
If posts make HN a less interesting place to converse I don't see why humans should get a pass & I don't see anything in the guidelines to support that view either.