Morton spent his early years in Texas and high school years in Atherton, California where he attended Woodside High School, graduating in the class of 1976. He alleges he was sent to a military school as well. He attended University of Southern California, graduating with a Bachelor of Arts in Political Science and a Bachelor of Fine Arts in Performing Arts. His father was a public relations official for NASA, and his mother was radio/TV personality and health author Maureen Kennedy Salaman. Both were fundamentalist Christians. He has said that as a child he often heard astronauts describe their experiences with extraterrestrials.
Morton became interested in the paranormal after a 1985 trip to England and Ireland where he became involved in what he calls either the Green Stone saga or the Meonia Stone saga. He later went to India where he met with the Dalai Lama. Morton claims that while in India, he was taught the secrets of time travel by Nepalese monks and that they also helped him to develop a system of remote viewing.