In my thesis I explored new control algorithms to improve autonomous control of a high performance aircraft in case of control effector failures. To be able to control such an aircraft a good control allocation algorithm is needed which minimise control effort and maximise performance. The main topic of my thesis is to investigate when total control failure occurs and to provide the means to improve current performance. I introduced failure events and provided feedback to the control allocation algorithm about the failed controls such that working controls can be selected to perform the manoeuvres. The flight scenarios for failure testing of high performance aircraft I created can be used as a benchmark for future research. The simulation was done in Matlab using Simulink and the performance data has been recorded of more than 1000 simulated flights. The most critical effectors during different flight phases and possible mitigating actions were identified.