Railway Cold Chain Service Network Design (RCC-SND) aims to optimise resource allocation and utilisation to ensure the efficient transportation of perishable foods. In this study, we propose a Mixed Integer Nonlinear Programming (MINP) model to solve the hub selection, service frequency determination, wagon flow organisation and routing problems in RCC-SND. The application of the model is illustrated using the real network comprising 163 cities in China. The PSO-GA algorithm is proven effective in solving the problem. Furthermore, we introduce two future scenarios to assess the carbon reduction potential and economic costs of railway cold chain operations. There are some main findings: as the hub number increases from 30 to 40, the total cost decreases, as the hub continues to rise, this reduction is offset by the increased hub operational costs. Increasing hubs can enhance direct train frequency while causing railway capacity redundancy, this redundancy can be addressed by freight volume increase, as demonstrated in this study, 4.5 times increase in freight volume can boost train utilisation by up to 12.5%. By 2030, railway cold chain carbon emissions are projected to exceed 1.1 million tons, the adoption of hydrogen as alternative energy is an economically viable solution for emission reduction.