10.9.1 update bricked my mac pro

Running a 2008 MacPro 3,1 with Mavericks installed and the 10.9.1 update puts the machine into a reboot loop.
Machine is a stock configuration except for a 240GB OWC Mercury E2 PCI-Express SSD, (which is encrypted and PW-protected).
When the machine starts, I get a gray screen with the Apple logo, and a dark gray progress bar.  When progress bar is complete, the machine shuts off completely.  Turn it back on and the same thing happens.
I had restored from a Carbon Copy Clone backup (10.9, also encrypted and PW-protected) and that worked, except when I returned from vacation, the machine re-applied the 10.9.1 and I am stuck in the loop again.
How to fix this?

Okay....After many hours of trying this and that to fix this issue I think I have some answers. First, it wasn't the update that broke things (my apologies to Apple). I tried the combo update and that seemed to work until I reinstalled a DSP card (UA UAD-2 audio processing card) along with the Nvidia Geforce GT610 video card I had been using. Then the same problem cropped up again. The computer wouldn't boot. I returned the OS to 10.9.1 and tried again. Same problem. What I finally figured out was that it's my KVM switch causing the whole mess. Both monitors work fine when hooked up directly to the Mac but when I insert the KVM switch the system will boot the first time but not if I shut it down and restart it. I've had this KVM for years and it worked okay with my G4, G5 and PC hooked up to it but for some reason it will not work with the Mac Pro in the configuration I have it now. The only other thing I haven't tried yet is having both monitors hooked up via DVI to VGA adapters and then trying to use the KVM again. Right now one monitor is hooked via DVI and the other is hooked via DVI to VGA adapter. The computer doesn't seem to have a problem with this. Actually this might be a problem with the KVM, DSP card and the aftermarket graphics card combination but everything works normally with out this KVM in the mix.
So would a new KVM fix this? I need the VGA output on the KVM because my PC only has a VGA output and the graphics chip is built into the motherboard. I'd rather not install a new graphics card on the PC and get a DVI KVM if I can help it.

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