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#11
Good news and bad news.
Good news: I did a direct partition to partition clone of my Windows installation and all the files seem to be there (according to the Parted Magic file browser).
Bad news: Windows won't boot. I've tried a startup repair, I've tried to upgrade install to repair Windows, but that can only be done if Windows boots which seems dumb to me like needing to go online to activate your internet connection.
So, for my next trick, I will be running CHKDSK /R on the disk using another computer running Windows 7 x64.
Details on what I did to clone the drive:
I used clonezilla from Parted Magic
I chose disk-to-disk
I chose expert mode
I selected the -rescue flag
I let it run (for 43 hours of stress)
And that brings us to the present.
OH, I also cloned the 100MB system reserved partition. It is in the same place as it was on the old drive: at the beginning.