In situ mooring systems with acoustic Doppler current profilers were installed in western (TM01) and eastern (TM02) parts of Yeosu Bay from September 3 to October 2, 2021, to understand the controlling mechanism of suspended sediment transport. The current flows were mainly dominated by tidal forcing, with an ebb-dominance. Power spectral density analysis of suspended sediment concentration (SSC) exhibited quarter-diurnal (6.21 h) frequency in TM01 and semi-diurnal (12.42 h) frequency in TM02. The results indicated that the SSC variation in the western part was driven by local sediment resuspension, while it was influenced by horizontal advection in the eastern part. Such differences in current flows and SSC variation over the tidal cycles caused an imbalance of sediment transport. In TM01, the seaward sediment fluxes were dominant owing to ebb-dominant tidal pumping (88% of total). In TM02, meanwhile, landward sediment flux was primarily driven by residual current (73% of total). Although the suspended sediment fluxes tended to be mutually compensated and balanced by circulation over the entire period, the suspended sediment fluxes in TM02 were about twice higher than those in TM01. The mechanisms controlling transport of suspended sediment may vary spatially, and relative contributions of tidal pumping and residual circulation could result in an imbalance of sediment transport.