A scene manager, in response to detecting user input indicating an obscured window may initiate transparency assisted window focus and selection. The scene manager may cause the obscured window to be rendered fully opaque while causing any obscuring windows to be rendered highly, or at least partially, transparent allowing the contents of the obscured window to be at least partially visible through the transparent content of the obscuring windows. The scene manager may cause transparency-enabled applications to redraw obscuring windows to be highly transparent. Alternatively, the scene manager may utilize a graphics subsystem capable of rendering the obscuring windows highly transparent. The scene manager may be configured to cause obscuring windows to be rendered multiple times, each time with increasing levels of transparency so that the obscuring windows fade from opacity to transparency.