I doubt HM is overly upset about this. And she was also not upset about Harry marrying out of class, all for the simple reason that Harry is not the son of Charles.
Princess Diana had an SAS bodyguard with red hair, and Harry bears a strong resemblance to him. His name is James Lifford Hewitt, and he has admitted to the affair. Here is a picture of the adult Harry and James.
https://i.imgur.com/ataqhHd.jpg
Harry’s father is Prince Charles.
Anything else is rumor and untrue.