You, and your son, need to be up-front about what is wrong, and the adaptions that are needed.
Once everyone is clear on your son's problem, and how best to communicate with him, there should not be a problem.
I also do not think you have a clear grasp on what is involved in a Boy Scout Troop. Just because boy #1 (please, twit? you are an adult and this is a child) is his father's "Golden Boy", and the father is the Committee Chair of the Cub Scout Pack, he is not automatically destined to be your son's Patrol Leader.
First of all, your son might not even be in the same patrol as this boy.
Second, even if he is in the same patrol, Patrol Leaders are not appointed by the Pack's, or Troop's, CC, or any other adult. Patrol Leaders are elected by the boys in the patrol.
Bottom line is that you can not wrap your son in bubble wrap, and protect him from the world. He needs to learn to deal with his disability, and stand up for himself. A boy-led Scout Troop seems like a great place for that to happen.