Help - Previous iPhone backup not recognized after 2.0 upgrade

I updated to iPhone software version 2.0 today. Prior to doing so, I synced the phone, then made a clone of my hard drive using SuperDuper!. Before the upgrade everything was working normally.
I'd previously had a total of 3 iPhones synced with this computer. One phone was last backed up August 07, one was last backed up December 07, and my current iPhone should have been backed up earlier today when I synced my phone. (Am I incorrect in assuming that the phone is backed up with every sync?)
Anyway, after updating the software, the iPhone was restored to factory settings, then I was prompted to restore data from a backup. The problem here is that the only iPhone backup listed by iTunes was the December 07 backup - it did not list the other two backups (August 07 and today). I didn't want to write over my phone with old data, so I set it up as a new phone, assuming I would be able to locate this morning's backup and restore from that.
Now the problem is, this morning's backup appears nowhere. In Syncing Preferences in iTunes, I get three iPhone backups listed: 1. backed up on August 07, 2. backed up on December 07 and 3. Backed up after being configured as a new iPhone.
I hope I haven't lost you all at this point
Anyway, my calendars, contacts, email, etc all appear OK, but I have lost my notes and settings. I suspect this morning's iPhone backup should be on the clone I made of my drive prior to the upgrade, but I'm not sure where to locate it or how to get it transfered back over to my Mac.
On my cloned backup, I have located this folder:
~Library/Application Support/MobileSync/Backup/<LongStringOfCharacters>
This folder appears to have the right modification date (my sync right before my 2.0 upgrade).
If I simply copy that folder over to my Mac, will iTunes recognize the backup and allow me to use it to restore my iPhone?
Or can any one recommend anything else I can do to get my notes and settings back?
Any assistance would be greatly appreciated.
Thanks
Dawn

I just installed iTunes from a direct download from apple about a week ago, and it updated itself earlier today. It states it is iTunes version 7.7.1.11.
iTunes does not even recognize that the iPhone is connected anymore.
I've rebooted, disconnected and reconnected the phone several times, I can't seem to make anything happen

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