The methodology developed in Part 1 of this investigation (Riggins, D. W., McClinton, C. R., and Vitt, P. H., "Thrust Losses in Hypersonic Engines Part 1: Methodology," Journal of Propulsion and Power, Vol. 13, No. 2, 1997, pp. 281-287) for the identification and evaluation of the thrust losses in a scramjet engine is applied to one-dimensional scramjet engine flows with coupled loss mechanisms. Thrust and thrust potential losses are related directly to increases in irreversible entropy caused by friction, heat transfer, mixing, nonequilibrium reaction, and shocks. This method is extended to enable the evaluation of thrust losses in multidimensional flows. The fundamental relationship between performance assessment utilizing multidimensional flowfields and cycle analysis performance prediction is shown and discussed.