Storage shows 66 GB of Apps but on only 60 GB of hard drive space

Odd right? What's going on here?

Try booting into the Recovery Drive and running Repair Disk in Disk Utility .
Boot into the Recovery Drive by holding down Command R when restarting.
Run Repair Drive and Repair Permissions using Disk Utility in Recovery.
When you restart, boot into your Air using Safe Boot mode. Then restart normally.
Safe boot
*  shutdown
*  start the Mac and *wait* for the startup chime to sound
*  after the sound, press and hold down the shift key
*  keep holding and *wait* until the grey  Apple logo appears
*  now release the shift key and just wait (it could take a few minutes)
*  eventually the login screen appears with the words SAFE BOOT
*  continue to login to see if the problem goes away.

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