Objective To study the effect of different carotid artery flow waveform on the wall shear stress of carotid artery bifurcation. Methods Special software is used to construct the carotid bifurcation TF-AHCB numerical model. Womersley method is used to compute Bloch and Holdsworth that two classic blood flow velocity profiles, and this two velocity profiles were inputted separately into CFD software as inlet conditions to compute the flow field and wall shear stress distribution of carotid artery bifurcation. Results Low wall shear stress zones of carotid artery bifurcation outboard root produced by different flow waveform are similar, but Holdsworth waveform makes oscillatory shear index increased significantly because of its lower dicrotic notch. Oscillatory shear index produced by Holdsworth waveform is the Bloch waveform’s 1.75 times and in some areas high up 0.49. Conclusion In the carotid artery bifurcation hemodynamics numerical experiments or simulant experiments, correctly inlet flow waveform and velocity profile conditions are important.