This paper deals with the interaction and small-scale processes occurring around the inlets that connect the Venice Lagoon with the Northern Adriatic Sea. In a previous paper, barotropic processes have been investigated, whereas here, the focus is on the baroclinic processes. The hydrodynamics of the area are studied by means of a 3D shallow water hydrodynamic finite-element model, suitable to describe areas of complex morphology such as the coasts and the interaction channels. This is the first work that models the 3D interaction between the Venice Lagoon and the Adriatic Sea. Three different sets of simulations have been carried out to identify the physics behind the small-scale processes and the influence of the main forcings on the study area. The first imposes different idealized forcings, such as tides, wind, and river runoff. The vorticity maps of the first two layers show the predominance of wind forcing in the coastal area and tidal forcing in the three inlets of the Lagoon. Bora wind acts homogeneously, increasing the littoral currents, while Sirocco wind mainly impacts near Chioggia inlet, with a coastal current reversal, inducing its detachment offshore. Freshwater patterns are present along the coast, near the river mouths. Rivers do not directly influence Responsible Editor: