Purpose: This work aims to evaluate the effects of the different meshes constructed in MIKE 3 software on the simulation and calibration results of the model. Theoretical framework: 3D hydrodynamic models, such as MIKE 3, provide the closest representation of reality by simulating the gradients in the three spatial dimensions and solutioning the Navier-Stokes equations. In these models, meshes are used to represent complex geometries. An efficient computational mesh is required to allow convergence and stability of the solution of the equations and, furthermore, of the modelling result. Method/design/approach: Simulation of four meshes with distinct discretization, calibration, comparison, and assessment of the model performance for these four conceptual models considering: mesh’s number of elements, simulation time, mean absolute error (MAE), coefficient of determination (R2), and relative difference. Results and conclusions: For the meshes adopted for comparison, refinement only in the “throat” (region near the dam) did not show significant influences on the results that would justify its use, considering the high computational cost. Therefore, in this case, a sparse mesh and without refinement can be used in detriment of a mesh with refinement only in the “throat”. Research implication: Understand how different meshes discretization can significantly alter simulation time and highlight that optimized simulation requires an equilibrium between simulation time and mesh discretization to maintain model’s performance. Originality/value: Understanding and quantifying the influence of the discretization of the model's mesh on the simulation time and the performance of the model allows the optimization of the modeling, considering the cost-effectiveness of different discretizations leading to smaller simulation time with similar performance.