Urban-rural integration is an important development strategy in China, and land is an important production factor for urban-rural integration. How to allocate land resources directly affects socio-economic development and ecological civilization construction. This paper combines the demand for urban-rural land integration with relevant information on land resource allocation to construct decision variables in land resource allocation. Subsequently, constraints for land resource allocation are established, and the objective function for land resource allocation is established using the linear programming method. Based on this, the CLUE-S model is used to optimize the allocation of land resources. The results of empirical analysis show that the model in this paper is able to realize the optimal allocation of land resources in Wenzhou city, where land resources are unevenly distributed, and the optimization increases its cultivated land area by 0.18%. We also found that the model can optimize land resource allocation in the Lunan Economic Circle. The area of urban construction land in this area increased by 11131.27hm² from the optimization base period to the end period, which can meet the demand for economic development. The model proposed in this paper can achieve the scientific and reasonable allocation of land resources in urban-rural integration, which provides an important guarantee for the efficient and intensive use of land resources.