With the continuous expansion of industrial processes, the scale of logistics transportation in hazardous chemicals transportation industry has been expanding, and the increasing transportation costs have posed new challenges to the development of this industry. Based on the theory of cost control method, this paper studies the logistics transportation cost of hazardous chemicals and proposes relevant control measures. The research results show that the longer the transport distance, the higher the transportation cost and risk cost; under the condition of fixed transport distance, the rigid influencing factors are not controlled by the transport enterprises of hazardous chemicals. Both population density and free-flow speed have a greater impact on risk costs. With the cost as the core, the fixed cost, operating cost and transaction cost are combined organically according to the minimum cost requirement, so as to minimize the total logistics cost. This study has important guiding significance for reducing the transportation cost of hazardous chemicals and improving the profit and competitiveness of enterprises.