Corrupt songs will play in quicktime - but won't copy to HDD.

Hi All,
Background/Symptoms: My macbook pro (2008 unibody) crashed a little while ago. It started being really sluggish, so I tried to install an update and during the update I got an error. I turned off the computer and it wouldn't boot past the apple logo. When I started it in Verbose mode I was getting a disk input output error.
What I've tried:
1. Took it to the genius bar, after the tests on the HDD he said that it appeared to be fine and to try reinstalling the OS.
2. I tried booting it up in target disk mode to copy my files over to my imac and was able to get off a good portion of my documents. When I tried to copy over music I would get an error 36 saying that it couldn't be copied, I went through the artists individually and it said this for about 90% of them.
3. I tried reinstalling snow leopard (that was my current OS) but about 1/4 the way through the install a big exclamation mark appeared and it said the install failed.
4. After the failure above, I did an archive and install of Leopard (not snow leopard) and was able to get the OS up and running.
Current Situation:
So with the semi success above, I can view my music in the previous systems folder from the macbook pro's new OS. When I try to add the music to itunes, it says it's corrupt and won't add. I get the same error (36) when I try to copy it from the previous systems folder to an external hard drive or just to the desktop of the macbook pro. Here is the weird thing. When I open the corrupt files in quicktime player, they play! On one of the songs that I'm testing, only the first 3 minutes plays and then it ends, but on most of the others it will play fully. Is there a way to scan for the corrupt songs and only copy over the ones that aren't corrupt?
Thanks in advance, please let me know if there are more details I can provide.
~Greg

I have experienced that when there is something a little quirky about the files. Personally, what I would do in your situation is use iTunes to convert the files to AAC using these instructions: http://support.apple.com/kb/HT1550 Then see if the AACs transfer to the iPod.

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This is very weird. I have 44 songs that are not working right.
A few months ago I moved my music files to one central location on my computer (aside from iTunes). I wanted to get rid of duplicates and songs I just didn't want and more importantly I wanted to make sure the names were all correct.
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Yes - I have tried restoring my iPod
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