Evidences of abnormal intrinsic brain activity in schizophrenia (SZ) are inconsistent demonstrated by previous studies. A meta-analysis that explored the differences of the ALFF between SZ patients (including first episode [FE] and chronic patients) and healthy controls were conducted. FE patients demonstrated decreased ALFF in the DMN and increased in the putamen, VN (visual network). Chronic patients showed decreased ALFF in the DMN, sensorimotor network, and VN and increased in the salience network, frontotemporal regions. Aberrant regional brain activity during the initial stage and widespread damage with the progression of disease contributes to understand the progressive pathophysiology feature of SZ.