Well it's now nearly October and FTM still hasn't come up with the capability to accomplish this task easily. I would be interested in your scripts if still available.
Had to reinstall OS (Vista)
On DVD Disc I have .ftmb, .ftm, and media folder.
Had to call support for an install serial. They asked if I purchased the extended download.
Me "uhhh no I saved the download file when I purchased it" (Here's your sign support)
Before trying to link my own family file I worked with a much smaller family. I tried downloading from Ancestry, etc. even tried merging. Tried syncing with Ancestry again (same tree name) but it just makes a duplicate tree on Ancestry. Grr. Wish I knew about the app data folder before. I'm just frustrated with FTM 2012 & Ancestry right now.