Yes, points awarded for highest degree indeed.
Technically, you're right, there is no point in regards to your express entry/PR application itself.
But because you're paying the same amount, some people may argue that you might as well go ahead and assess your next degree in case their highest degree doesn't get evaluated as Masters. Overly cautious indeed. Just to get the best return for your money.
Totally up to you. If it's a real hassle to get transcripts sent by your school to WES or to yourself, there is no point really...