In this paper, we propose a nonlocal cross-diffusion-fluid system describing the dynamic of interacting multi-populations living in a Newtonian fluid. First, we derive our nonlocal cross-diffusion-fluid system from a nonlocal kinetic-fluid model by performing the micro-macro decomposition method. Second, we prove the existence of weak solutions for the proposed system by applying the nonlinear Galerkin method within a priori estimates and compactness arguments. Based on micro-macro decomposition, we propose and we develop an asymptotic preserving numerical scheme. Finally, we deal with the computational results of the proposed system.