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I have 3 partitions:

  /dev/sda1   Windows 7 (C:\)
  /dev/sda2   Shared NTFS partition (D:\)
  /dev/sda6   Ubuntu 13.04 

I will hibernate Windows 7 then boot to Ubuntu, it works fine, but any changes I make to the 'Shared NTFS partition' will not be seen by Windows.

Is there a way to make Windows only hibernate the state of the C: drive so that I can edit files in the 'Shared NTFS partition' and have them be seen by Windows?

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this is not possible. Windows doesn't close all handles and flushes the data to disk. This also causes data loss in Windows 8 when you use the new faststartup feature.

If you want to boot into Linux shutdown Windows correctly.

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I can boot into and use Linux when Windows is hibernated, I just can't edit the D: partition. Isn't there a way I can unmount the D: partition before shutting down windows? – minerz029 Sep 13 '13 at 4:05
not that I'm aware of. Shutdown Windows correctly to avoid this issue. – magicandre1981 Sep 13 '13 at 4:09
Well, you could close all files on D:\, start disk management (start, run, diskmgmt.msc) and remove the drive letter or mount path for the D: volume or use cmd in combination with mountvol. That might work (might since I do not know how much more information windows will remember if you hibernate. So shutting down rather than hibernating ias the safe choice). – Hennes Sep 13 '13 at 5:10

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