Promoting cultivated land use efficiency (CLUE) coordinated development in various major function-oriented zones is a measure to deal with unbalanced development of territorial space in China. Taking the optimized development, key development, agricultural production, ecological function, and ecological economic zones of Zhejiang province as research objects, this study incorporated agricultural carbon emission into the measurement framework of CLUE and analyzed the regional disparity and the convergence of CLUE from 2008 to 2017, using slack-based measure model (SBM), the Theil index, and convergence theory. The main results are as follows: (1) The CLUE value that considered agricultural carbon emissions was lower than the CLUE value that did not consider agricultural carbon emissions; thus, agricultural carbon emissions had a negative effect on CLUE. (2) The CLUE value of the five major function-oriented zones showed an increasing trend; after ranking the CLUE value, the CLUE of the optimized development zones was the highest, followed by the ecological function, ecological economic, and key development zones, and that of the agricultural production zones was the lowest, indicating significant regional disparity. (3) The overall disparity of CLUE presented an upward trend, and the within-regional disparity is the main source of the overall disparity. (4) Neither σ convergence nor absolute β convergence occurred in the CLUE of the five major function-oriented zones, but conditional β convergence occurred among the optimized development and ecological economic zones. Although the planning of major function-oriented zones reflects the regional disparity and convergence of CLUE to some extent, the CLUE under the control of major function-oriented zones is not consistent with the function positioning.