Getting duplicate icons from Docky

I've been scouring for a while and have decided to finally make a post I've tried changing .desktop files in /usr/share/applications and was wondering if there's another way, one that actually works.

http://liquidaurum.imgur.com/all/
This is what's happening, and same thing for terminal

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http://liquidaurum.imgur.com/all/
This is what's happening, and same thing for terminal

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Welcome to the Apple Discussions!
Somehow your baby has activated the hidden Dock preference. Go to the Apple menu and choose System Preferences... In Sys Prefs choose the Dock pane. There is a check box to automatically hide or show the Dock.
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Getting duplicate icons from Docky

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