I am not too sure how I can explain this but it seems that Compton for some reason has a delay or is displaying the last active window when I hit the print screen button to take a screenshot of my desktop (I am using xfce4-screenshooter). Basically, if I had firefox as the active window and minimized it to take a screenshot of my desktop, when I press the button to take the screenshot it will take it and have Firefox in the screnshot instead of my desktop. If I do try and take a screenshot again, it will be of my desktop but also with the screenshot program appearing. I am almost certain this had to do with something in my config file but I have looked and it seems normal.

EDIT: This happens whenever GLX backend is used.

Compton config - http://pastebin.com/Y48zbupU