Problem
In Ubuntu distros after 12.04, I started noticing that some applications, such as nautilus and calculator, would appear behind the active window when launched using keyboard shortcuts. This was especially noticeable for people like me who set their windows to always appear in the center of the screen rather than being "smart" and just using any free window space.
Solution
Launch compiz
Navigate to the "general options" area.
the third tab, "focus and raise behaviour", and set "focus prevention level" to "Off".
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