I have an Earlly 2008 Mac Pro running Mavericks. I recently upgraded to Mavericks; downloaded software for a new Brother Printer; CleanMyMac 2., and Open Office.

This is my first post. Hope I am entering it correctly.
Open Office requires Java which exposes Macs to Hackers. A recent MacWorld magazine recommends removing Java which is not loaded with Mavericks. Could my Mac Pro been comprised with Java being present?
Other Problems:
When Time Machine is backing up the Icon in the Menu Bar no longer turns to indicate it is backing up.
In System Preferences > Security and Privacy > General, Option and Advance selections are dimmed. Unable to make selections.
Opening Apps very slow.
If I make a search and then select one of the items from the search, when I close the item it goes to the top of the search items and not back from where it was selected to open. So it is no longer in alphabetical order from the search items. I cannot drag it to its original position in the list.
The App CleanMYMac 2 keeps opening a window asking me if I want to open the App.

Could my Mac Pro been comprised with Java being present?
Java running inside your Browser, accessible from unknown Web sites is the threat.
Having Java Present is not a significant threat. If you run only trusted Applications, the threat is very small.
When Time Machine is backing up the Icon in the Menu Bar no longer turns to indicate it is backing up.
Apple realized that spinning Icon punished screen refresh, and changed the design. Now a subtle triangle appears and stays still while the backup is in progress.
In System Preferences > Security and Privacy > General, Option and Advance selections are dimmed. Unable to make selections.
Did you click the big Lock to authenticate as Admin?
The App CleanMYMac 2 keeps opening a window asking me if I want to open the App.
Many Users consider Apps like clean my mac to be dangerous. These Apps have a habit of throwing away parts of Mac OS X that are needed for proper operation. No one needs to run such stuff -- Mac OS X takes care of cleaning itself.  The space freed does not generally improve performance, and throwing away caches usually slows down your Mac (until the caches are re-created and then the so-called problem has not been solved).

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    Go to System Profile and look, does it say "MacPro3,1"?
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    You can but take a hit in performance.
    Sounds like MacPro1,1.
    Mac Pro (3.0GHz quad core (dual CPUs) 8GB 667 RAM)
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    So just to be clear.
    ===========
    It was all working fine a couple of days ago. At the time it randomly shut down I was trying to use Boot Camp to create a Windows 7 area,
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    No don't bother Apple, they seem to not have a good sense about Windows on Mac Pro anyway.
    Other than zap pram from cold boot / tried booting with NO drives inside and just 10.6. DVD - should be fine.
    You should be fine iwth Windows 7 DVD and one drive, or even XP.
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