Comprehensive land consolidation (CLC) has become an effective tool for promoting the coordinated development of production, living, and ecological spaces (PLES) in rural China. Given the remarkable territorial differentiation, planning strategies that are geared towards local conditions are indispensable for implementing CLC projects. This study employs the minimum cumulative resistance (MCR) model to simulate the horizontal competition among PLES in Chongqing. The suitability evaluation index system for PLES was developed using natural ecological data, socio-economic data, and land use data from Chongqing Municipality. The results show that: (1) Based on the principles of productivity, livability, and sustainability, the suitability of PLES in Chongqing is classified into highly suitable, moderately suitable, generally suitable, unsuitable, and extremely unsuitable areas. The spatial distribution of suitability across different levels in Chongqing exhibits certain degrees of overlap, intersection, and clustering. (2) Based on the different resistance relationships, 1031 townships in Chongqing were divided into seven types of CLC areas. The northeastern and southeastern regions of Chongqing Municipality exhibit distinct ecological and functional advantages, whereas the northern and western parts of the city are characterized by greater multifunctionality. (3) Tailored CLC measures are suggested for various suitability scenarios, aligning with local conditions and planned developments. The MCR model and PLES theory integrated zoning methods for CLC are practicable and effective, providing a scientific foundation for the construction of land consolidation plans in Chongqing and important references for regional sustainable development.