The cumulative problem of vertical deformation for super high-rise buildings during construction becomes more significant as the height of structure continue to increase nowadays, for which the investigation of the characteristics of the vertical deformation is worth conducting. First, the technique of simulation of the construction process for super high-rise buildings was developed systematically, with which simulation of construction of the three typical high-rise buildings was conducted. The effect of concrete creep, shrinkage and leveling during construction were investigated and the characteristics of the vertical deformation revealed. Furthermore, a method of pre-deformation for super high-rise buildings was presented with deformation compensation stepwise. The total vertical displacement and the relative deformation between the inner core tube and the outer steel frame were chosen as the control targets in the method, which can be used to address the cumulative problem of vertical deformation and to provide technical support for deformation control in construction of super high-rise buildings.