Pons was born in Valdese, North Carolina. He attended Valdese High School, then Wake Forest University in Winston-Salem, North Carolina, where he studied chemistry. He began his PhD studies in chemistry at the University of Michigan in Ann Arbor, but left before completing his PhD. His thesis resulted in a paper, co-authored in 1967 with Harry B. Mark, his adviser. The New York Times wrote that it pioneered a way to measure the spectra of chemical reactions on the surface of an electrode.
He decided to finish his PhD in England at the University of Southampton, where in 1975 he met Martin Fleischmann. Pons was a student in Alan Bewick's group; he earned his PhD in 1978.