The thermal structure of the upper atmosphere of Jupiter, the composition of the atmosphere and the strength of mechanical mixing, and sources and sinks of ionization in the Jupiter ionosphere are described from Voyager UV spectrometer, radio, IR, and imaging data. A topside ionospheric temperature of 1300 K was observed, along with an energy equilibrium between the plasma and neutral gas in the upper atmosphere. A composite thermal structure is provided, noting a close similarity to earth conditions at upper levels, and enhanced thermal behavior has been detected between the times of solar minimum and maximum activity. Ammonia photochemistry is examined, and measured concentrations of H2, CH4, C2H6, and C2H2 as a function of height are outlined. Eddy diffusion coefficient calculations are carried out, yielding a highest Ly-alpha intensity of 100 million sq cm/sec. The increased exospheric temperature between 1973 and 1980 is stressed to have no known satisfactory explanation.