I agree those folders should not be deleted. May I suggest, that since it is in your nature to make changes to the system (wisely asking for advice, first) create a system restore point on a regular basis. By default, a new restore point should be created about once a week. Check your default points, make sure that they are being created on a regular basis. In addition, before making any changes create a restore point.
I might, also, suggest that you make a system image and put it in a safe place in the event that it is needed.
It is really better to be safe than sorry. Good luck
I see that I did not type fast enough. Good answer, Jon.