The objective of this work is to report a computational fluid dynamics study assessing the hemodynamic effects of fenestration misalignment, towards understanding post-surgical complications of fenestrated endovascular aneurysm repair for abdominal aortic aneurysms. Idealized models were constructed based on geometries from a patient with an infrarenal aortic aneurysm. Fenestrated stent grafts were simulated in the models, with combinations of different fenestration misalignments and takeoff angles. Computational fluid dynamics simulations were performed by solving the governing equations for blood flow under physiologically realistic boundary conditions. Hemodynamic results of renal artery flow rate and time-averaged wall shear stresses were analyzed to build connections between the degree of fenestration misalignment, the takeoff angle, and changes in flow dynamics.