Invalid Node Structure errors keep coming back,

Hi people!
about 2 weeks I upgraded my internal HDD on my Mac Book 13" Unibody to a Western Digital Scorpion Blue 640gb... no big deal doing so. I booted up with the OX S 10.6 DVD and partitioned the drive into two and formatted each. I then installed OS X 10.6, then ran the software update. After every thing was complete I plugged in my USB 1TB drive and used Time Machine to create a backup.
After about a week of normal use I woke up one day to have my Mac Book take nearly 10min to boot, and when it did it was barely moving. I booted with the OS X DVD and ran Disk Utility and in reported Invalid Node Structure and I could not repair it. But the errors were only on the partition with OS X on it.
As I didn't have any files on that partition that I needed I did a Restore from Time Machine Backup that was on my USB drive. And all was good again. However this has happen about 3 times in the last 4-5 days. Each time I restore from the Time Machine backup and all is fine.
I thought I had it pinned down to a particular open source app that I was using but I restored the drive again last night and did not use that app this time... and this morning I am getting signs that something is going astray again (slow boot up times and slow shut down times etc). I am going to boot to the DVD and run Disk Utility again... but I am wondering is this software or can this new HDD be a dude? I never had this problem with the factory 160Gb Fujitsu drive that the Mac Book came with - although I never did partition that drive.
Any thoughts?
Cheers,
Chris

Hi streamworksaudio;
After you do that if this happens again, I would be really suspicious that drive is on the way out. I would be religious about backups and start checking around for a replacement.
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