The reduction in agricultural carbon emissions (ACEs) in Shandong Province is essential to China’s carbon peak and carbon neutrality objectives. In this regard, we constructed an ACE inventory for Shandong Province at a resolution of 1 km × 1 km, integrating the emission factor method with geographic information system (GIS) technology. Building upon this, we explored the dynamic evolution patterns of ACEs using kernel density estimation and conditional probability density estimation. Additionally, long short-term memory networks were trained to predict ACEs under various scenarios. The results showed that: (1) ACEs in Shandong Province exhibited two stages of change, i.e., “rise and decline”. Notably, 64.39% of emissions originated from the planting industry. The distribution of emissions was closely correlated with regional agricultural production modes. Specifically, CO2 emissions were predominantly distributed in crop cultivation areas, while CH4 and N2O emissions were primarily distributed in livestock breeding areas. The uncertainty of the emission inventory ranged from −12.04% to 10.74%, mainly caused by emission factors. (2) The ACE intensity of various cities in Shandong Province is decreasing, indicating a decoupling between ACEs and agricultural economic growth. Furthermore, the emission disparities among different cities are diminishing, although significant spatial non-equilibrium still persists. (3) From 2022 to 2030, the ACEs in Shandong Province will show a continuous downward trend. By 2030, the projected values under the baseline scenario, low-carbon scenario I, and low-carbon scenario II will be 6301.74 × 104 tons, 5980.67 × 104 tons, and 5850.56 × 104 tons. The low-carbon scenario reveals greater potential for ACE reduction while achieving efficient rural economic development and urbanization simultaneously. This study not only advances the methodology of the ACE inventory but also provides quantitative references and scientific bases for promoting low-carbon, efficient, and sustainable regional agriculture.