Random Pinwheeling (Beach Ball) after upgrade to 10.6.4

Everything was fine on 10.6.3. After System Update to 10.6.4, my MacPro takes 5 minutes to boot and launching apps takes 10 times longer (e.g. FCP 6 normally opens in 20 seconds but now takes over 2 minutes). Everything is slowed down from surfing the web to whatever.
I re-installed 10.6.4 using the combo updater to no avail. Running Techtools gives the system a passing grade except halfway thru the Volume scan of the boot volume, the test paused for 10 minutes. This didn't happen on the second volume which is identical and has about the same amount used.
I ran Verify/Fix off the system restore disk and it fixed a "serious error".
The system still randomly pinwheels for 20-40 seconds and then returns. Lots of Finder functions like grabbing a scroll bar or clicking thru folders randomly have a second or two delay and sometimes the system just pinwheels before doing the operation.
Looking at the Log, I see the Kernel frequently emitting this message:
kernel outputPacket: data connection is closed, dropping packetDropping packet
Altho it's in the log from before upgrading, it's now every 9 seconds. I see other errors at boot time having to do with Invalid Kernel extensions.
Any ideas on how to find and delete the bad kext files? I don't know where they are and I'm sure there's some old stuff hanging around since this unit comes from doing migrations from as far back as Tiger or maybe even Panther.
TIA

Let this be a lesson. Just because there is a NEW update does NOT mean you have to install it immediately. First and FOREMOST make sure you have a CLONE of your currently operating system.
2nd, consider doing what quite a few of us do, and WAIT for a week or so before installing the new updates. In addition, even if you DON'T wait, at least if you have a working CLONE, you can always go back to it, if the update screws up your system.
Face it, the days of "It JUST WORKS" for Apple hardware/software are OVER, and the sooner everyone realizes that the COMMODITY hardware Apple now uses is just as fallible as Dell/HP/etc.. hardware, the better off we will all will be.
The lack of QUALITY ASSURANCE is now evident, and the trend will continue until Apple takes its FORMERLY CORE AUDIENCE (the Macintosh COMPUTER OWNERS) as serious as it now takes its NEW VIRGIN "iDEVICE" owners. Whats sad, is quite a few of us(myself included) own BOTH/and or ALL of the above, and therefore are responsible for allowing Apple to treat us this way.....
Good Luck to us all..... "http://theoatmeal.com/comics/apple"
Cheers M8te!

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    4   libGPUSupportMercury.dylib     0x00007fff8a7d265f gpusSubmitDataBuffers + 484
    5   com.apple.driver.AppleIntelHD4000GraphicsGLDriver 0x0000123400362460 IntelCommandBuffer::getNew(GLDContextRec*) + 54
    6   com.apple.driver.AppleIntelHD4000GraphicsGLDriver 0x000012340035ee3d GenContext::prepareCommandBuffer() + 23
    7   com.apple.driver.AppleIntelHD4000GraphicsGLDriver 0x00001234003622d5 intelSubmitCommands + 201
    8   com.apple.CoreGraphics         0x00007fff92b53001 CGXGLAccelFinish + 156
    9   com.apple.CoreGraphics         0x00007fff92a89ddb CGXReleaseDisplayDeviceSurface + 197
    10  com.apple.CoreGraphics         0x00007fff92d5c147 CGXUpdateDisplay + 8838
    11  com.apple.CoreGraphics         0x00007fff92d59dfd update_display_callback + 125
    12  com.apple.CoreGraphics         0x00007fff92e1fdd3 run_timer_pass + 379
    13  com.apple.CoreGraphics         0x00007fff92cde0f9 CGXRunOneServicesPass + 164
    14  com.apple.CoreGraphics         0x00007fff92cde936 CGXServer + 807
    15  WindowServer                   0x00000001081eef96 main + 9
    16  libdyld.dylib                 0x00007fff8ef3a5fd start + 1

    I agree with Bob, run EtreCheck and post the results here.
    A couple of questions. You mentioned resetting the SMC, have you tried zapping the PRAM? If not, you can do this by:
    Shutting your Mac all the way down.
    Restarting your Mac and immediately pressing the Command-Option-P-R keys simultaneously.  Make sure you press the keys before the gray screen comes up.
    Hold those keys down until your Mac reboots again and you here the startup sound.
    Let go of the keys so your Mac reboots as per usual.
    Also, how long after upgrading to Mavericks did this problem start?

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    Dave.

    Did the force shut down and restarted. Everything seems to be ok, fingers crossed....

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