Mac Pro 2nd Gen not shutting down after latest leopard update 10.5.3

I have a mac pro 8 core 2nd gen machine (August 2007) just updated from 10.5.2 to 10.5.3 and immediately after doing so the machine usually will not shut down by it self. It goes through the shut down process, exits finder but then the grey spinning dial just keeps going. I left it for 30 minutes like that, and then realised I had to manually force power down by holding the power button. It does that now all the time, except once. I don't know what could be causing this, works fine otherwise, but really annoying as the machine is located in a difficult to reach spot- so when I finish work I have to reach around and hold down the power button to get it to turn off - wouldnt' mind to fix that.

try these steps
Mac Pro SMC reset
http://docs.info.apple.com/article.html?artnum=304123
PRAM Reset
http://support.apple.com/kb/HT1379

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