Jones conducted research at the Idaho National Laboratory, in Idaho Falls, Idaho where, from 1979 to 1985, he was a senior engineering specialist. He was principal investigator for experimental muon-catalyzed fusion from 1982 to 1991 for the United States Department of Energy (DOE), Division of Advanced Energy Projects. From 1985 to 1993, Jones studied deuterium-based fusion in the context of condensed matter physics under DOE and Electric Power Research Institute sponsorship. Jones also collaborated in experiments at other physics laboratories, including TRIUMF (Vancouver, British Columbia), LANL (Los Alamos, NM), KEK (Tsukuba, Japan), and the Rutherford Appleton Laboratory near Oxford University.