In fact, there is a difference in time between the two spheres. The heavier sphere takes longer time to reach the ground. The reasons, apart from air resistance, is the upthrust given by the air on the larger (heavier) sphere is greater than that on the smaller sphere. All these factors will slow down the acceleration of the heavier ball.
It is only because of the difference in time is so small, when the experiment was first done, time recording instruments at that time didn't have such a high precision for the small time difference to be observed.
Should the same experiment be done nowadays with the help of high precision atomic clock, a difference in falling time between the two spheres would be observed.