My Mac Pro does not switch off.

It worked before Lion. Installed 10.7 and also upgraded to 10.7.1 but, on both cases, it does not switch-off. To be precise it "sometimes" switch-off but many times it does not. Let's say once on 15 times... With Leopard I nevere had this problem. (it persists also after a PRAM reset). I also run a second problem but only once and only upgrading to 10.7.1 (not to 10.7). It says that my RAM was on wrong position.. I had to remove and install the RAM again and it worked.
Any other case like this? (This append only on my MacPro - early 2009. On my MacBook and my MacBook Pro OSX Lion works fine).

Is there a pattern to the chimes, or are they simply random, as if the Mac is repeatedly rebooting on its own?
Have you tried a "Safe Boot"? Press and hold a Shift key as you power up the Mac. Does it start then?
If it starts at all "Safe Boot" will take much longer than usual, that's normal. Shutting down will take longer also. Try it.

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        1   ??  Ss     0:01.98 /sbin/launchd
        9   ??  Ss     0:07.96 /usr/libexec/kextd
       10   ??  Ss     0:03.20 /usr/sbin/DirectoryService
       11   ??  Ss     0:00.11 /usr/sbin/notifyd
       12   ??  Ss     0:00.11 /usr/sbin/syslogd
       13   ??  Ss     0:02.17 /usr/libexec/configd
       14   ??  Ss     0:00.08 /usr/sbin/distnoted
       15   ??  Ss     0:00.84 /usr/sbin/blued
       16   ??  Ss     0:00.10 /usr/sbin/diskarbitrationd
       19   ??  Ss     0:00.41 /usr/sbin/mDNSResponder -launchd
       22   ??  Ss     0:01.90 /System/Library/CoreServices/coreservicesd
       25   ??  Ss     0:00.20 /usr/sbin/securityd -i
       32   ??  Ss     0:00.07 /usr/sbin/ntpd -c /private/etc/ntp-restrict.conf -n -g -p /var/run/ntpd.pid -f /var/db/ntp.drift
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       34   ??  Ss     0:00.37 /usr/sbin/krb5kdc -n
       35   ??  Ss     0:00.01 /usr/sbin/cron
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       39   ??  Ss     0:00.02 /sbin/SystemStarter
       43   ??  Ss     0:00.06 /System/Library/CoreServices/RemoteManagement/AppleVNCServer.bundle/Contents/Su pport/RFBRegisterMDNS
       45   ??  Ss     0:00.38 /System/Library/Frameworks/CoreServices.framework/Frameworks/Metadata.framework /Support/mds
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       47   ??  Ss     0:00.01 /usr/sbin/KernelEventAgent
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       50   ??  Ss     0:00.06 /System/Library/Frameworks/CoreServices.framework/Versions/A/Frameworks/CarbonC ore.framework/Versions/A/Support/fseventsd
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       81   ??  Ss     0:00.03 /usr/sbin/ocspd
       88   ??  S      0:00.21 /Applications/Retrospect Client.app/Contents/Resources/retroclient
       89   ??  Ss     0:00.01 /Library/StartupItems/ParallelsTransporter/llipd
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       94   ??  Ss     0:00.11 /usr/sbin/nmbd -F
      114   ??  Ss     0:00.05 /usr/sbin/coreaudiod
      136   ??  Ss     0:02.00 /sbin/launchd
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      141   ??  S      0:01.01 /System/Library/CoreServices/SystemUIServer.app/Contents/MacOS/SystemUIServer
      142   ??  S      0:03.13 /System/Library/CoreServices/Finder.app/Contents/MacOS/Finder
      146   ??  S      0:00.01 /usr/sbin/pboard
      147   ??  S      0:00.44 /System/Library/Frameworks/ApplicationServices.framework/Frameworks/ATS.framewo rk/Support/fontd
      150   ??  S      0:00.62 /usr/libexec/UserEventAgent -l Aqua
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      159   ??  S      0:00.03 /System/Library/CoreServices/CCacheServer.app/Contents/MacOS/CCacheServer
      160   ??  S      0:00.07 /System/Library/CoreServices/RemoteManagement/AppleVNCServer.bundle/Contents/Ma cOS/AppleVNCServer
      171   ??  S      0:00.24 /System/Library/Frameworks/SyncServices.framework/Versions/Current/Resources/Sy ncServer.app/Contents/MacOS/SyncServer
      178   ??  Ss     0:00.14 /usr/sbin/smbd -F
      183   ??  S      0:05.65 /Applications/iTunes.app/Contents/MacOS/iTunes -psn_0_65552
      186   ??  S      0:00.07 /Applications/iTunes.app/Contents/MacOS/iTunesHelper.app/Contents/MacOS/iTunesH elper -psn_0_69649
      188   ??  Ss     0:01.01 /System/Library/PrivateFrameworks/ApplePushService.framework/applepushserviced
      192   ??  S      0:01.09 /Applications/Utilities/Terminal.app/Contents/MacOS/Terminal -psn_0_73746
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      196 s000  S      0:00.02 -bash
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