The rapid development of e-commerce international trade has driven the rapid growth of the economic system of international trade enterprises. This also means that industry competition is gradually intensifying, which also makes performance evaluation the key to cross-border e-commerce international trade. At present, my country’s research on the performance evaluation of cross-border e-commerce international trade is in a blank state. Therefore, this paper takes the international trade performance evaluation of cross-border e-commerce as the research object and, based on the deep neural network model, develops a cross-border international trade performance evaluation model, changes trade strategies, and improves trade performance. This paper first analyzes various neural network models, such as artificial neural network, “BP” neuron model, and LSTM neural network. This paper summarizes a deep neural network model that is conducive to the development of cross-border e-commerce and points out the problems in the current performance evaluation of cross-border e-commerce international trade: the e-commerce market supervision system is not perfect; the second is the inconsistent evaluation indicators; the third is the evaluation system. There are some differences with the actual. Finally, this paper puts forward relevant suggestions for the performance evaluation of cross-border e-commerce international trade and points out the advantages and disadvantages of various neural networks, as well as their roles in cross-border e-commerce performance evaluation, and compares these neural networks through experiments. Experiments show that among these neural network models, the deep neural network model is the best and has the highest accuracy and stability in e-commerce trade performance evaluation. In the later stage, we will improve the global logistics system, strengthen the application of big data technology, and improve the overall performance of global operations. First, a set of indicators is designed to evaluate the performance of e-commerce systems, using the enterprise key factor model concept. In addition, this evaluation method is different from the commonly used expert evaluation method and physical evaluation method in evaluating the construction quality, cost, education and growth ability, and performance level of the international business system of cross-border e-commerce.