First i think that the analogy of an ghost in the machine is off somewhat first because it's says their is a little guy in the brain. I don't think that is how it works, i think there is a soul yes but that soul is similar to our physical body. In the video Steven Pinker mentions that William James and Alfred Russel Wallace were duped by Leonora Piper. Possible yes, but their seems no reason to think so, she was a very investigated medium. Of course Steven Pinker is getting this information that they were duped by word of mouth of other mainstream scientists. He mentions that if a person has a stroke certain parts of their brain is damaged. Which means they can't make a moral choice or to recognize a face etc. The way to explain that is by saying the brain limits and constrains the soul.
Here is the youtube video here