This work presents an adaptive fault-tolerant boundary control algorithm for a flexible beam system with actuator failures, external disturbances, and uncertain system parameters. Firstly, partial differential equations with boundary conditions are employed to model the system, and an adaptive compensation method is introduced to solve the issue that the overall number of faults can be infinite, encompassing complete and partial faults. By constructing the barrier Lyapunov function, a fault-tolerant boundary controller is designed to dampen beam vibrations and ensure that all states of flexible beam systems remain within the constraint domain. Simultaneously, the uniformly bounded stability of the flexible beam system is proved by Lyapunov's direct approach. Lastly, the validity of the presented algorithm is demonstrated through simulation results.