Based on the background of a multinational fast-moving consumer goods (FMCG) food company, this paper establishes a two-level system dynamics model of multinational FMCG food supply chain, and analyzes the risk of transportation disruption by simulation. A new perspective of risk management strategy based on different management objectives is proposed. It is found that under the multimodal transportation mode of “air transportation→sea transportation→road transportation”, the priority order is the road transportation stage>sea transportation stage>air transportation stage when the company’s target is to reduce the overdue quantity, while the priority order is the road transportation stage>air transportation stage>sea transportation stage when the company’s target is to reduce the market loss. The dominant strategy is to give priority to the road transportation stage when the company has two targets at the same time. In the multimodal transportation mode of “road transportation→sea transportation→air transportation”, the priority order in the three transportation stages has changed. The company no longer has a dominant strategy, but there is an inferior strategy. The risk of raw material expiration caused by the transportation disruption in the later transportation stage is always higher than that in the earlier transportation stage. Different target-oriented companies need to be alert to different mixed disruptions and reduce the probability of mixed disruptions. The same transportation disruption in different multimodal transportation modes will lead to different risk levels.