Studying the effect of variable fertilization during the jointing stage on winter wheat production in the rice-wheat rotation area is critical for evaluating the application effect and economic benefits of variable fertilization technology. The variable fertilization experiment of wheat was carried out in Jiangsu province by using the self-developed fertilizer applicator. Three fertilization methods were used to conduct a comparative analysis of the fertilization amount, population structure, and yield of winter wheat during the jointing stage. On this basis, the economic feasibility of variable fertilization during the jointing stage was evaluated. The experimental results showed that the control accuracy of variable-rate fertilization with fertilization equipment was greater than 95%. After variable fertilization, the coefficient of variation of NDVI values in the winter wheat canopy spectral data remained between 0.076 and 0.125, and the Christensen uniformity coefficient remained between 0.901 and 0.940. Compared with the traditional empirical balance method for quantitative fertilization of plots, the real-time variable fertilization plot used 13.6 kg/hm2 less fertilizer during the jointing stage. The findings validate that implementing variable fertilization can help reduce nitrogen fertilizer input, improve nitrogen fertilizer utilization efficiency, reduce environmental pollution, and enhance the sustainability of agricultural production.