Vacuum preloading combined with prefabricated vertical drains (PVDs) system has been widely used to improve the soft clay with high water content. Clogging is usually formed around the PVDs during the vacuum preloading, impeding the propagation of the vacuum pressure and slowing down the consolidation process. To understand the forming mechanism of the clogging, particle image velocimetry (PIV) technique and particle tracking velocimetry (PTV) technique were adopted in the model test of vacuum preloading test. Through this study, three stages can be identified from the results of water volume discharge rate and maximum displacements versus time. In the first stage, the soil around the PVD is horizontally consolidated, which leads to the rapid formation of clogging. In the second stage, the formation of clogging slows down due to the loss of vacuum pressure, which further reduces the drainage. In the third stage, the clogging tends to be stable, and the drainage consolidation rate is significantly reduced. PTV results show that there is a difference in the displacement of large and small particles during improvement. Two methods were proposed to estimate the thickness of clogging zone, reflecting a growing layer of clogging zone compressed around the PVD. This study provides new insights to investigate the formation mechanism of clogging during vacuum preloading test.