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Im running Mac OS X Lion 10.8.2 and every time I boot up and go to my Applications folder the apps are all over the place, I proceed by arranging them alphabetically but later they are all over the place once again. Any ideas on what could be happening or why?

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Can you try running sudo rm /Applications/.DS_Store from a Terminal? If that doesn't help, please add more details: Does it only happen to the Applications folder or all? Or just a few? Does the issue persist when you reboot? Does it happen when you log into another user account (create one and test if possible)? –  slhck Dec 24 '12 at 14:18
    
@slhck Been trying to test but lately I havent had problems as soon as they persist I will try remove the DS_Store file and see if it fixes the problem. Cheers –  Dragan Marjanovic Dec 27 '12 at 10:01

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