In an automated container terminal, various factors affect the operation of container handling equipment such as quay cranes and AGVs, and thus calculating the exact operation time is nearly infeasible. This uncertainty makes it difficult to dispatch AGVs well. In this paper, we propose a simulation-based AGV dispatching algorithm When dispatching an AGV to an operation, the proposed algorithm conducts multiple stochastic simulation for the succeeding AGV operations for the predetermined period to collect stochastic samples of the result of the dispatching. In the stochastic simulation, the uncertainty of crane operations is represented as a simple probability distribution and the operation time of a crane is determined according to this. A dispatching option is evaluated by the total delay time of quay cranes which is estimated by averaging the quay crane delay of each simulation In order to collect a sufficient number of samples that guarantee the credibility of the evaluation, we devised a high-speed simulator that simulates AGV operation The effectiveness of the proposed algorithm is validated by simulation experiments.