Organic fertilizer is utilized to improve the organic carbon levels in arable soils, which is helpful for soil quality improvement and crop yield increase. However, the after-effect of organic fertilizer varies among regions with different temperature and precipitation conditions, and the extent of the impact remains unknown. This study aimed to investigate the impact of varying temperature and rainfall conditions on the accumulation of soil organic carbon after organic fertilizer application. A meta-analysis of 168 peer-reviewed studies published between 2005 and 2022 involving a total of 464 trials was conducted. The following was discovered: (1) In the major grain-producing areas of China, there was a significant positive correlation (p p 400 mm > more than 800 mm. (3) The influence of climatic conditions on the after-effect of organic fertilizer was more significant depending on the specific tillage practice. To increase organic fertilizer use efficiency and eliminate greenhouse gas emissions, liquid organic fertilizers with abundant trace nutrients and amino acids, which take advantage of releasing nutrients more swiftly and have a better fertilization effect, could be an alternative to traditional organic fertilizers.