When the mouse is going over a renderwindow, the ExtApp Mainwindow is forcing itself to be on the Top of all other ExtpApp Windows.
This is bad, when you need to interact with small popup windows.
e.g. in the segmentation bundle
rightlclick on node - threshold. it is nearly impossible to interact with the popup. By clicking "New Segmentation" you get popup for the name selection which is also hiding when the mouse goes over a renderwindow.