Who do I believe - Onyx or Disk Utility??

My mid-2009 MBP has been running 100% until this morning.
I restarted and for the first time I got the infamous progress bar on startup, After about two/three minutes, it went to the login screen and the OS seems to be running normally apart from Safari losing the homepage and wifi not auto-connecting to my home wifi.
I booted into Lion's recovery partition and ran Disk Utility - the disk was reported to be 100% with no problems. I rebooted into the OS and ran Onyx. Onyx reported the SMART status to be fine, but when checking the drive, it reported a problem and that I should run Disk Utility from the recovery partition. I did this again, but DIsk Utility again says there are no issues.
In the past I have had to run disk utility to repair incorrect file sizes/block sizes (IIRC) - the repairs were always succesful. At the time I assumed this was related to me using uTorrent to download a couple of files (nothing copyrighted!!). I didn't use uTorrent for a while and had no issues. Yesterday I used uTorrent again, and now this issue.... Is this just a coincidence??
If uTorrent is causing an issue, I am still left with the problem that Onyx reports a problem with the drive, while Disk Utility says all is well, preventing me from repairing anything......
I am still getting the progress bar on startup....
Would be very grateful for any ideas/advice!
P.S. I recently upgraded the RAM to two 4GB sticks. However, I immediately ran memtest in single user mode and it reported no issues with the RAM, so I don't think RAM could be an issue....?

OK... I see your points, but I'm still left with the fact that there clearly is an issue somewhere: I'm still getting the progress bar on startup (which is not normal) and yet Disk Utility says there are no problems. So what do I do?

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