Uncertainty and measurement noise are main obstacles that limit the tracking control performances of flexible air-breathing hypersonic vehicles (FAHVs). In this article, we propose a novel fixed-time convergent nonsmooth backstepping control scheme for FAHV via augmented sliding mode observers (ASMOs) to overcome these obstacles. The ASMOs are first designed for the FAHV dynamics by employing the measured states corrupted by noises as inputs. On one hand, the ASMOs can simultaneously estimate the uncertainties and filter out the measurement noises. On the other hand, the observation error of each ASMO can be convergent within a fixed time independent of its initial observation error. Then, based on the estimation results, the altitude and velocity tracking controllers are developed by using fixed-time nonsmooth backstepping technique. Afterwards, a Lyapunov-based stability analysis is given to illustrate the fixed-time convergence of the closed-loop signals of the FAHV control system. Finally, comparative simulations are conducted to illustrate the superiority of the proposed control scheme.