Hypersonic boundary layer measurements were conducted over a flared cone in a quiet wind tunnel. The flared cone was tested at a freestream unit Reynolds number of 2.82x106/ft in a Mach 6 flow. This Reynolds number provided laminar-to-transitional flow over the model in a low-disturbance environment. Point measurements with a single hot wire using a novel constant voltage anemometry system were used to measure the boundary layer disturbances. Surface temperature and schlieren measurements were also conducted to characterize the laminar-to-transitional state of the boundary layer and to identify instability modes. Results suggest that the second mode disturbances were the most unstable and scaled with the boundary layer thickness. The integrated growth rates of the second mode compared well with linear stability theory in the linear stability regime. The second mode is responsible for transition onset despite the existence of a second mode sub-harmonic. The sub-harmonic wavelength also scales with the boundary layer thickness. Furthermore, the existence of higher harmonics of the fundamental suggests that non-linear disturbances are not associated with high free stream disturbance levels.