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Here are some suggestions:

- Have a look to the status of the disk storing the file system containing this directory. (df -k; iostat -En)
- Be ready to replace it.
- Make sure you have up to...

I think we need more information and to ask some questions first.

1. Using this exact same hardware, if you throw on a different operating system (eg, Windows or Linux distro) does the GUI work?...

No, patching is not exactly the same as updating. Patches are applied on an "as needed" basis, that is, it updates software that is already installed on the system. Updating installs (updates) to a...