In cross-border transactions, the transmission and processing of logistics information directly affect the trading experience and efficiency. The use of Internet of Things (IoT) technology can make this process more intelligent, efficient, and secure. However, most traditional IoT logistics systems are provided by a single logistics company. These independent systems need to withstand high computing loads and network bandwidth when processing large-scale data. Additionally, due to the complex network environment of cross-border transactions, the platform’s information security and system security are difficult to guarantee. To address these challenges, this paper designs and implements an intelligent cross-border logistics system platform that combines serverless architecture and microservice technology. This system can uniformly distribute the services of all logistics companies and divide microservices based on actual business needs. It also studies and designs corresponding Application Programming Interface (API) gateways to solve the interface exposure problem of microservices, thereby ensuring the system’s security. Furthermore, asymmetric encryption technology is used in the serverless architecture to ensure the security of cross-border logistics data. The experiments show that this research solution validates the advantages of combining serverless architecture and microservices, which can significantly reduce the operating costs and system complexity of the platform in cross-border logistics scenarios. It allows for resource expansion and billing based on application program requirements at runtime. The platform can effectively improve the security of cross-border logistics service processes and meet cross-border transaction needs in terms of data security, throughput, and latency.