Flocculation is an integral part for cohesive sediment transport processes as it will further influence other processes such as settling, deposition as well as erosion processes. To understand the impacts of flocculation on entrainment process of fluid mud with different salinities, a series of entrainment and sedimentation experiments were conducted. Entrainment experiments were conducted under constant hydrodynamic conditions driven by a shear ring on the top of an annular flume. While the sedimentation experiments were conducted within cylinders with different diameters. Results show that fluid mud samples with different salinities can form different distributions of sediment concentration in the vertical direction, which will significantly influence the entrainment rate of fluid mud. Results also show that entrainment rate of fluid mud with higher salinity (E18) is smaller than that of fluid mud with lower salinity (E4) in the upper layer of fluid mud. Sedimentation tests show that the settling rate of fluid mud sample with higher salinity is enhanced and the gelling concentration is reached at a lower sediment concentration. These two mechanisms cause the different distributions of sediment concentration for fluid mud under different flocculation states. Accordingly, the mud characteristics such as density, viscosity, yield strength, buoyancy effects and eventually the entrainment rate vary with different fluid mud samples (the initial sediment concentrations are the same). An effort has also been made to predict the entrainment rate with existing equation. The good agreement between from equation and experimental results further demonstrates that the flocculation process should be considered when calculating the entrainment rate, as accurate prediction of the entrainment rate of fluid mud requires the details of sediment concentration and rheological properties of fluid mud in the vertical direction.