Scientific calculation of ecological compensation standards is key to achieving the coordinated development of ecology and economy. Taking the ecological development zone of Huizhou City as a case study, this research constructs a compensation standard calculation method that integrates ecosystem service value (ESV) accounting with payment capacity adjustment coefficients. First, based on the equivalent factor method, the ESV is evaluated by incorporating land use changes and grain yield correction coefficients, resulting in an ESV increment of 5.83 billion CNY for the period 2020–2024. Second, the engel coefficient is introduced to build a resident payment capacity coefficient, while principal component analysis and the entropy weight method are used to construct a regional payment capacity coefficient. The estimated ecological compensation amount is 3.29 billion CNY, accounting for 0.57% of Huizhou's GDP and 7.10% of its fiscal revenue during the same period. The study shows that by quantifying regional economic disparities and payment capacities, the ecological compensation standard can be scientifically determined and is practically feasible. The results provide theoretical support and policy guidance for the design of ecological compensation mechanisms in urban territorial spatial planning.