How to fix "You are not allowed to use "Application"" How do I fix this message, I am Admin, Mobile. Even if i login to a root account this message still appears. I have iTerm so if any commands need to be inputted to fix this problem I can still do it. This also happens with activity monitor. 
Mavericks
Old question, but I'll answer it anyway:

This message is from JAMF's Casper Suite. You can remove all the JAMF nonsense with either sudo /usr/sbin/jamf removeFramework or sudo /usr/local/bin/jamf removeFramework (depending on the version installed).