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At some point when I reinstalled Mac OS X Lion, the application switcher started minimizing apps so that when I switch to one all others minimize.

This causes problems when working with my developer IDE and a browser. Many times throughout my day I want to look at two or more applications at once.

How can I fix this?

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You probably enabled a hidden preference for the experimental single app mode. It can be undone with:

defaults delete com.apple.dock single-app
killall Dock
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