The substitution of fossil kerosene by alternative energy carriers is a prominent mitigation lever of the climatic impact of aviation. Yet, prospective aviation scenarios are subject to significant uncertainties concerning the future evolution of air travel demand, aircraft technology, and the availability of energy resources. A demand model was calibrated with socioeconomic data from the World Bank and used prospectively with data from the Shared Socioeconomic Pathways database. The Generic Airplane Model was used to design a set of aircraft with conventional and alternative propulsion systems, under varying technology scenarios. Then, optimal mitigation scenarios were generated using a Multidisciplinary Optimization methodology, by minimizing the cumulative carbon emissions of the sector with respect to the energy mix and the penetration of new aircraft on the current fleet. The scenario database also provided the production of biomass and electricity, which constrained the sectoral consumption of these resources, and for the carbon intensity of electricity production, which allowed to estimate emission intensity associated to electricity-based energy carriers. Finally, the implementation of scenario optimization is discussed, where the use of Differential Programming libraries allowed simultaneously for reducing implementation costs associated with these problems and a 65 to 78 speedup.