Youtube downloads and playbacks are choppy and out of sync

This has been going on for about two months and I have tried everything including a trip to the Genius Bar.  What I found out at the Genius Bar is that when the new internal hard drive was installed in my iMac the repair people just transferred everything from my old disk to the new disk.  So, Lion was not properly "installed" and the Genius re-installed Lion so that I would have the extra disk space should I need to start up on the C drive for repairs.
It was not long after the  new disk installation that Safari stopped playing Youtube videos properly.  I uninstalled and reinstalled Java, but I still feel like the proper plug in is not installed to run videos.  I have no problems running youtube on Chrome or FireFox, so it is just a Safari problem.
How can I find out what is missing and where can I go to get the program to install?
Thanks.

Hi there. I've been experiencing the same problem for some time now on several, but not all, youTube videos. Today I thought "Heck, I'll put youTube into HTML5 mode and see what happens." by visiting http://www.youtube.com/html5 (thinking perhaps it's Flash)
It turns out I probably WAS in HTML5 mode already, thus, there was no change. Instead I turned YouTube's HTML5 mode off (from the very same page.) And now the videos that were bringing down Safari and the CPU through QTKit Server play just fine.

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