Aerodynamic derivatives are widely used to model the self-excited forces on bridges and for estimating the corresponding flutter stability limit. It is currently unclear to which degree the aerodynamic derivatives of a cross-section depend on the presence of turbulence in the incoming flow. However, it is believed to depend on the cross-section. In this study, wind tunnel experiments were conducted with forced vibration testing to investigate whether aerodynamic derivatives for a twin deck cross-section changed with increasing turbulence and whether longer measurement periods would yield less uncertainty in the estimated aerodynamic derivatives. Critically, large scatter in the wind tunnel experimental results was observed. Numerical simulations were run to investigate the uncertainty of aerodynamic derivatives related to turbulence and the length of the measurement period. It was shown that the presence of buffeting forces might disturb the identification of aerodynamic derivatives and that the uncertainty of the aerodynamic derivatives decreases for longer measurement periods. Real changes in aerodynamic damping due to turbulence are shown to be probable despite the shortcomings of the system identification procedure.