I don't know about the commerative flight you mention. It is for sure the Enola Gay wasn't involved with the Doolittle Raid. Both were special missions flown on different dates.
I have a picture of the pilot who flew the second B-25 off the USS Hornet. It was Travis Hoover his rank at that time, unknown to me. In the picture I have of him he is wearing the rank of Colonel. He was a Command Pilot. He was living in Jopling, MO. when I corresponded with him. Since then he has passed away. He wrote on the picture that he was the pilot of crew number 2.