The ability to move and resize the Goals/New Message/Alerts/Completed Research windows.
It would be really helpful to be able to move and resize the message windows. All of the other windows for buildings and vehicles can be moved. Some of the message windows docked on the top left become unreadable when other windows have messages queued. (Notably, the New Messages and Alerts windows)
It would be nice to be able to resize all the windows or at least have the ability to minimize the windows. Your view area quickly becomes reduced as you start to monitor more buildings.
Also, if the windows stayed persistent thru saves, instead of having to reopen all the windows you want to monitor after each save, it would be awesome.