The invention discloses an aircraft structure function integrated design platform system based on uncertain optimization. The aircraft structure function integrated design platform system is composed of a system framework program and seven sub-modules comprising a pneumatic shape design optimization module, a forecabin thermal protection system design optimization module, a wing thermal protection system design optimization module, a composite cooled structure design optimization module, a wing heat-protection load-bearing integrated structure optimization module, a wing pneumatic/structure/thermal coupling optimization analysis module and a basic database module. An integrated design of the platform is achieved on the basis that certain analysis optimization and uncertain analysis optimization of system functions of each structure are carried out. The platform integrates an aerodynamic force/heat database, an integrated model database and various algorithms into the system, and a convenient tool is provided for non-professionals to carry out an integrated design.