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When the meta-heuristic algorithm solves the joint resource allocation problem of multi-beam satellites, the computational complexity increases and the algorithm is difficult to converge due to the time delay constraint and capacity constraint. This paper introduced a penalty mechanism in the objective function, and added a penalty value to the objective function of the invalid solution, so that the optimized solution adaptively satisfied these two constraints. Based on this, this paper proposed a joint resource allocation algorithm based on quantum-behaved particle swarm optimization. Simulation results show that the introduction of the penalty strategy solves the problem of difficulty in handling the delay constraint and capacity constraint when applying the meta-heuristic algorithm. The quantum-behaved particle swarm optimization algorithm with penalty mechanism outperforms the existing joint allocation algorithm in terms of allocation fairness index and total system capacity. [ABSTRACT FROM AUTHOR]