Since the Holocene, marked transformations have occurred in patterns of human activity and modes of subsistence, with agriculture progressively becoming the principal means by which human societies modified and adapted to natural environments and sustained social development. The North China Plain (NCP) serves as the core region for the origin of millet agriculture in northern China and remains a pivotal area for understanding the genesis and evolution of Chinese civilization. By analyzing plant macrofossils from three sites-Zhujia, Dalaidian, and Wangzhuang-in the Qihe River basin (QRB), and integrating with crop assemblages from 54 representative sites across the North China Plain, this study systematically examines the synchrony between the evolution of Neolithic agricultural structures and climatic change in the region. The results demonstrate that multiple drought events had varying impacts on millet and rice agricultural systems in the NCP throughout the Neolithic period. Early communities responded to abrupt climatic perturbations by strategically adjusting agricultural structures to secure stable food supplies, thereby ensuring the sustained development of their societies. Furthermore, confronted with recurrent Neolithic drought events, prehistoric communities adopted diverse adaptive strategies, with their adaptive capacity progressively strengthening over time.