NON OF THE F KEYS WORK AS ORIGNAL OUT OF THE BOX DEFAULTS

I have a Mac Pro 3,1 using OSX6.8.  I have recently replaced the original hard drive for one with larger capacity. In the process, I have made this new HD the startup disk too. All the programs I am using are up to date and are working well. I am having a problem with my Key board function keys though. I regularly use them for sound, the optical disk drive, exposé, spaces, etc. It is really weird opening dashboard with the volume key, hit the f12 key again and my optical drive opens; all with the f12 key.  Another weird issue is when I select spaces with my control key and the designated number the handy spaces window on screen stays in view. The only way I can get rid of that is by deactivating spaces entirely. I have gone through the system preferences and tried to restore my defaults to no avail. Your suggestions are much appreciated.

In System Preferences > Keyboard uncheck Use all F1, F2, etc. keys as standard function keys.

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