RE: Icons/Applications not responding, possible corruption in HDD

Hi, I'm having several problems with my sidebar and a few applications related to icons on the sidebar.
I recently tried to access my system preferences and i'm finding that when i click on the icon on the sidebar it does not respond, i have the same problem with Adobe Bridge, Toast Titanium and Front Row.
With regards to sys pref, i cannot even find the application in the master hdd folder window, this is causing me some concern as i purchased my macbook via a student deal and most of the software minus the audio programs <Logic Express, Reason 4 and Pro Tools 8> Disc Burning <Toast Titanium> and Media <Adobe CS4> all of which are legitimate versions purchased direct from the suppliers, were pre-installed.
My question is twofold.
If i have to do a re-install of 0sX and i do not have the physical copy of the software disc, will my apple care package extend to a free re-install? I paid for the 5 year package <to my knowledge> so i am hoping that this could be the case.
If i need to re-install the individual SW how can i ensure that the problem does not occur again. As i need to use Toast on a frequent basis and sys pref to change certain settings i would like to be sure that this won't happen again during a session or ever again.
While i'm asking questions i may as well ask if there is anyway to pinpoint where the problem lies, after growing up on speccing and programming PC based systems the transition to Apple has been quite pleasant although i need to troll through the OSX troubleshooting forums to understand how i might be able to open the system portal to run some debugging programs. If anyone can point me to the right area of the forums and perhaps suggest some debug programs for OSX it would be appreciated.
Thanks in advance.

Welcome to the Apple discussions.
You don't say who your student deal was with. When Apple preloads optional software on a new system, it provides disks so the software can be reloaded. You should have the original OS X disks for your system, plus disks for any installed software. Applecare is a 2 year extended warranty on top of the standard 1 year warranty, for a total of 3 years, same in Australia as the US. If you think you have 5 years of coverage, you should find documentation to support that, and read the terms and conditions.
On the original OS X disks that should have come with your system, there is an Apple Hardware Test which is a good tool for testing the hardware. In the US, Apple provides TechTool Deluxe with the Applecare agreement - don't know if they also do that in Australia. TechTool Pro is another tool, more powerful than TechTool Deluxe, to examine your system.
You can run some preventative maintenance too. I use OnyX periodically to keep disk files in good shape. It's available from http://www.titanium.free.fr/pgs/english/apps.html

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