The effect of viscous dissipation and rarefaction on heat transfer characteristics of hydrodynamically and thermally fully developed flow between parallel plates with constant heat flux conditions is analyzed. Three different types of heat flux boundary conditions, i.e., both plates kept at different constant heat fluxes, both plates kept at equal constant heat fluxes, and one plate insulated, are applied. In all cases, closed form expressions are obtained for the temperature distribution and Nusselt number. Viscous dissipation, rarefaction, and heat flux ratio are found to influence the heat transfer substantially. The present predictions are verified for the cases which neglect the microscale and viscous heating effect. The obtained results are in good agreement with other analytical results.