An improved 3-D ECOM-si model was used to study the impact of seasonal tide variation on saltwater intrusion into the Changjiang River estuary, especially at the bifurcation of the North Branch (NB) and the South Branch (SB). The study assumes that the river discharge and wind are constant. The model successfully reproduced the saltwater intrusion. During spring tide, there is water and salt spillover (WSO and SSO) from the NB into the SB, and tidally averaged (net) water and salt fluxes are 985 m 3 /s and 24.8 ton/s, respectively. During neap tide, the WSO disappears and its net water flux is 122 m 3 /s. Meanwhile, the SSO continues, with net salt flux of 1.01 ton/s, much smaller than during spring tide. Because the tidal range during spring tide is smaller in June than in March, overall saltwater intrusion is weaker in June than in March during that tidal period. However, the WSO and SSO still exist in June. Net water and salt fluxes in that month are 622 m 3 /s and 15.35 ton/s, respectively, decreasing by 363 m 3 /s and 9.45 ton/s over those in March. Because tidal range during neap tide is greater in June than in March, saltwater intrusion in June is stronger than in March during that tidal period. The WSO and SSO appear in June, with net water and salt fluxes of 280 m 3 /s and 8.55 ton/s, respectively, increasing by 402 m 3 /s and 7.54 ton/s over those in March. Saltwater intrusion in the estuary is controlled by the river discharge, semi-diurnal flood-ebb tide, semi-monthly spring or neap tide, and seasonal tide variation.