In the present work, we will study the superconducting properties of a mesoscopic threedimensional prism with square transversal section under an external magnetic field in both Zero-Field Cooling (ZFC) and Field-Cooling (FC) process. The studied sample is a three-band system (with three condensates ψ1, ψ2, ψ3), in which we take a Josephson type inter-band coupling simulated via γ parameter. We analyze the magnetization, superconducting electronic density and free Gibbs energy considering both processes. As results, we found an interesting tunneling of vortex and antivortex between the bands, and vortex cluster configuration in the sample. This behaviour is due to the non-monotonic interaction between the bands.