In this paper, the integrated scheduling problem for berth and quay crane in automated container terminals under uncertain conditions is studied, in other words, aiming at the ship arrival time and the sudden failure of the quay bridge are two different types of uncertainty factors. A decision framework combining proactive scheduling strategy with response scheduling strategy is proposed, the problem is decomposed into two sub-problems: proactive and reactive scheduling. Aiming at the uncertainty of the actual arrival time of ships, a robust proactive scheduling scheme is generated by increasing the buffer time. For quay crane fault uncertain, in scheduling phase reaction, the loss caused by sudden fault for quay crane, considering the reality of different interests preference, based on prospect theory analysis, terminal operators and ship operators are given in the face of the quay crane fault decision-making behavior, set up to restore target cost minimizing mixed integer programming model. An improved adaptive genetic algorithm was proposed to solve the model, and three groups of simulation experiments were designed. By comparing the performance of the proactive-reactive scheduling strategy with other scheduling strategies, the effectiveness of the proactive-reactive scheduling strategy was verified.