Windows 7 no longer boots

For those that might be able to help, here is my dilemma...
I have a late 2006 Mac Pro 2,1 8-core 3.0ghz with 7gb ram, ATI Radeon HD 5870 1gb vram running 10.6.8.
The problem I am having is this. I originally had a 250gb hd that came with my Mac Pro. I installed a second 1tb hd in the second slot for more storage. Then I added a second 1tb hd for a dedicated WinXP installation. Then I added a third 1tb hd for a dedicated Win7 64bit installation. At this point, everything was working just fine and I could boot between OS X and WinXP/7. When I booted into Windows, a screen came up and let me select which Win OS I wanted to boot into, again, all working perfectly.
So after about 6 months I start running out of room on my original 250gb hd with Mac OS X and decide that Win7 64bit has been running so well that I should get rid of WinXP and swap out the 250gb hd for the 1tb hd for my main OS X hd. I erase WinXP, reformat the 1tb hd for Mac OS X and copy the 250gb hd to the 1tb hd. Then I switch the hd's out and put the 1tb in the #1 slot that originally had the 250gb hd in and put the 250gb hd in the #3 slot. Then I erased the 250gb hd.
After cleaning out a bunch of font duplications in Fontbook and getting rid of some unwanted startup items, my Mac Pro was running as wonderfully as ever. A few days after the changes, I decided to boot back into Win7 64bit. I held down the option key at startup as usual and selected windows. A few seconds later I get a black screen with an error message saying disk is not bootable.
I began to wonder since Bootcamp installation of Windows 7 is not officially supported on this early Mac Pro model that by deleting the WinXP installation, that I somehow disabled the Win7 64bit system. So I reinstalled WinXP on the 250gb hd in the #3 slot but now I can only boot into WinXP, still no Win7 64bit.
If I go to System Preferences>Startup Disk, I can see and select Windows 7 as a startup disk, but it still reverts to WinXP during boot up.
I am hoping to find out some simple but overlooked solution to this issue without having to reinstall Win7 64bit, since this machine isnt supported, it was a major pain to use the ATI 5870 and get Win7 64bit installed.
I have documented everything that I have done to the computer between last known working system and the current issues.
Any help is greatly appreciated.
Mark

I could not even get to that window, I was able to select repair or complete install but when I chose repair, a message came up saying I couldnt repair that version of windows. It is the same disk I used for installation and it is in perfect condition.
Original HD configuration that was working was:
Slot 1 - original apple 250gb hd with System OS X 10.6.8
Slot 2 - 1tb hd formatted for OSX for storage
Slot 3 - 1tb hd with System Windows XP SP3
Slot 4 - 1tb hd with System Windows 7 64bit
HD configuration when that I changed:
Slot 1 - original apple 250gb disk was copied over to Slot 3
Slot 2 - unchanged 1tb hd formatted for OS X storage
Slot 3 - erased hd, reformatted and copied files over from hd in slot 1 using Disk Utility
Slot 4 - unchanged, Windows 7 64bit Ultimate installed now not booting
I have tried swapping the Windows 7 hd to each hd slot and rebooting (a Mac Pro gets really heavy after doing that 3 times!). Using startup manager, the windows boot option is unavailable. I can still boot into OS X in each placement without issues. I can go to System Preferences>Startup Disk and can see the Windows 7 option and select it. However even if I restart the computer from Startup Disk with Windows 7 selected, it will go to a black screen and say enter CD.
In case this helps, I had to purchase an original Windows 7 64bit ultimate and then create a new bootable system disk to install on this computer. I tried system repair from both disks and it did not work.
Im beginning to think that reinstallation is unavoidable, but still hoping that I can find a solution first. The actual installation isnt the major issue, it shouldnt take more than an hour to reinstall and update the video drivers. Its the installation of the programs and having to redo all of the settings on the 4 major programs that I am using that will literally take days. Oh man, somebody must know the answer!!
Thanks again for the response, I truly appreciate the help

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    May  2 12:49:01 SCH-MacBookPro.local WindowServer[354]:   Display 0x003f0041: Unit 5; Vendor 0xffffffff Model 0xffffffff S/N -1 Dimensions 0.00 x 0.00; offline enabled, Bounds (3585,0)[1 x 1], Rotation 0, Resolution 1
    May  2 12:49:01 SCH-MacBookPro.local WindowServer[354]:   Display 0x003f003f: Unit 3; Vendor 0xffffffff Model 0xffffffff S/N -1 Dimensions 0.00 x 0.00; offline enabled, Bounds (3586,0)[1 x 1], Rotation 0, Resolution 1
    May  2 12:49:01 SCH-MacBookPro.local WindowServer[354]:   Display 0x04280142: Unit 2; Alias(2, 0x5); Vendor 0x610 Model 0xa005 S/N 0 Dimensions 13.03 x 8.15; online enabled built-in, Bounds (435,-1050)[1680 x 1050], Rotation 0, Resolution 1
    May  2 12:49:01 SCH-MacBookPro.local WindowServer[354]: CGXMuxBoot: Boot normal
    May  2 12:49:01 SCH-MacBookPro.local WindowServer[354]: GLCompositor: GL renderer id 0x01024400, GL mask 0x00000003, accelerator 0x00004f2f, unit 0, caps QEX|MIPMAP, vram 1024 MB
    May  2 12:49:01 SCH-MacBookPro.local WindowServer[354]: GLCompositor: GL renderer id 0x01024400, GL mask 0x00000003, texture max 16384, viewport max {16384, 16384}, extensions FPRG|NPOT|GLSL|FLOAT
    May  2 12:49:01 SCH-MacBookPro.local WindowServer[354]: GLCompositor: GL renderer id 0x01022727, GL mask 0x0000003c, accelerator 0x00004907, unit 2, caps QEX|MIPMAP, vram 1024 MB
    May  2 12:49:01 SCH-MacBookPro.local WindowServer[354]: GLCompositor: GL renderer id 0x01022727, GL mask 0x0000003c, texture max 16384, viewport max {16384, 16384}, extensions FPRG|NPOT|GLSL|FLOAT
    May  2 12:49:01 SCH-MacBookPro.local WindowServer[354]: GLCompositor enabled for tile size [256 x 256]
    May  2 12:49:01 SCH-MacBookPro.local WindowServer[354]: CGXGLInitMipMap: mip map mode is on
    May  2 12:49:01 SCH-MacBookPro.local loginwindow[353]: **DMPROXY** Found `/System/Library/CoreServices/DMProxy'.
    May  2 12:49:01 SCH-MacBookPro.local WindowServer[354]: Display 0x04248378: Unit 4; ColorProfile { 2, "Thunderbolt Display"}; TransferFormula (1.000000, 1.000000, 1.000000)
    May  2 12:49:01 SCH-MacBookPro.local WindowServer[354]: Display 0x04280142: Unit 2; ColorProfile { 3, "Color LCD"}; TransferTable (256, 12)
    May  2 12:49:01 SCH-MacBookPro.local launchctl[356]: launchctl: Dubious permissions on file (skipping): /Library/LaunchAgents/com.adobe.AAM.Updater-1.0.plist
    May  2 12:49:01 SCH-MacBookPro.local launchctl[356]: com.apple.findmymacmessenger: Already loaded
    May  2 12:49:01 SCH-MacBookPro.local com.apple.SecurityServer[23]: Session 100021 created
    May  2 12:49:01 SCH-MacBookPro.local UserEventAgent[357]: Failed to copy info dictionary for bundle /System/Library/UserEventPlugins/alfUIplugin.plugin
    May  2 12:49:01 SCH-MacBookPro.local airportd[71]: _doAutoJoin: Already associated to “schuyler”. Bailing on auto-join.
    May  2 12:49:01 SCH-MacBookPro.local loginwindow[353]: Setting the initial value of the magsave brightness level 1
    May  2 12:49:01 SCH-MacBookPro.local loginwindow[353]: Login Window Started Security Agent
    May  2 12:49:01 SCH-MacBookPro.local ManagedClient[362]: ApplePersistence=YES
    May  2 12:49:01 SCH-MacBookPro.local SecurityAgent[363]: Failed to create agent mechanism, failing authentication!
    May  2 12:49:01 SCH-MacBookPro.local com.apple.authd[84]: engine[353]: error creating mechanism agent
    May  2 12:49:01 SCH-MacBookPro.local com.apple.authd[84]: engine[353]: evaluate returned -60008 returning errAuthorizationInternal
    May  2 12:49:01 SCH-MacBookPro.local loginwindow[353]: Login Window - Returned from Security Agent
    May  2 12:49:01 SCH-MacBookPro.local loginwindow[353]: ERROR | -[LoginApp performAuthPluginRequest:] | AuthorizationRef doesn't have a username. Exiting.
    May  2 12:49:01 SCH-MacBookPro.local WindowServer[354]: CGXRestartSessionWorkspace: session workspace exited for session 256 (on console)
    May  2 12:49:01 SCH-MacBookPro.local WindowServer[354]: Session 256 released (1 references)
    May  2 12:49:01 SCH-MacBookPro.local WindowServer[354]: Session 256 released (0 references)
    May  2 12:49:01 SCH-MacBookPro.local WindowServer[354]: loginwindow connection closed; closing server.
    May  2 12:49:03 SCH-MacBookPro com.apple.launchd[1] (com.apple.loginwindow): Throttling respawn: Will start in 1 seconds
    May  2 12:49:04 SCH-MacBookPro.local loginwindow[364]: Login Window Application Started
    May  2 12:49:04 SCH-MacBookPro com.apple.launchd[1] (com.apple.WindowServer): Throttling respawn: Will start in 7 seconds

    Hi
    You got a prob I think, if you can boot a windows, MSconfig, startup options might restore the boot files.Only other thing is to try and either load a new windows and let it setup a boot file, or perhaps a win98 startup disk, and fdisk, then set active partiton, which will set an MBR.  But that would leave a load of work to do, I think I'd opt for an install of XP, and let it repair existing installation, and make a new boot file.
    Hope you don't need the info on disks.  If you do, I would install another HDD, load XP, then copy original Disk to save place.
    Good luck
    Jocko

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    Greetings,
    Well, now that I have repaired the fan problem, I am afraid I have created one.
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    2007-8EU 
    Moderator Note; s/n edited for member's own protection
    Solved!
    Go to Solution.

    Hello,
    It sounds like the primary partition may no longer be marked as "startable" or "active" in the partition table of data located at the end of the master boot record, which is what the MBR code uses to determine which partition's boot sector to load.
    If you have a Windows XP installation disc, you can try booting from that, starting the Recovery Console (instead of an operating system installation) and using the FixMBR and FixBoot commands to repair the MBR and boot sector (for good measure), respectively.
    Regards,
    Aryeh Goretsky
    I am a volunteer and neither a Lenovo nor a Microsoft employee. • Dexter is a good dog • Dexter je dobrý pes
    S230u (3347-4HU) • X220 (4286-CTO) • W510 (4318-CTO) • W530 (2441-4R3) • X100e (3508-CTO) • X120e (0596-CTO) • T61p (6459-CTO) • T43p (2678-H7U) • T42 (2378-R4U) • T23 (2648-LU7)
      Deutsche Community   Comunidad en Español Русскоязычное Сообщество

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