This paper describes the control of two deformable mirrors (DM) and a tip tilt mirror for adaptive optics. The purpose of this experimental adaptive optics system at the University of Victoria is to prove the Woofer Tweeter concept for use in instruments for the Thirty Meter Telescope (TMT) which is currently under development. The first deformable mirror is a large stroke DM (Woofer) capable of lower frequency correction in both the temporal and spatial domains. The other DM (Tweeter) is capable of the high temporal and spatial frequency corrections of the turbulence. The response speed of the Woofer is incorporated into the Tweeter controller in order to allow for appropriate offloading from the Tweeter to the Woofer. In order to determine which Tweeter shapes must compensate for the slower Woofer and which are not coupled to the Woofer, the cross correlation of the devices is determined. The method of converting the wave front sensor (WFS) measurements to control signal error is given. The transfer functions of the controller are provided, along with rejection ratio plots, bandwidths and amplitude response to system noise.© (2006) COPYRIGHT SPIE--The International Society for Optical Engineering. Downloading of the abstract is permitted for personal use only.