My Command User Interface window undocks itself when I switch between commands or environments. I used the Solid Edge Options Helpers to toggle over to use docking window form and have docked to my Pathfinder on a second sceen. But, it is very unstable. I never had this issue with any previous version.
Thanks for the response, Jason. I have used this functionality with ST4 without a problem. After initial set-up all worked well, now that my company just upgraded to ST6 the windows just pop out with every environment change. It looks like I will be writing an IR on this.