Looks like my "missing or corrupt" error is solved.
As the DBP guys like to (and need to) point out this program is a UI layer on top of BCDedit. It does not fix underlying problems on the windows machine. This is what my problem was that yielded a DBP issue.
I could not run the built-in BCDEdit utility that Windows provides. It would always complain about an unavailable boot store, file not found. I dug into it and found the problem was caused by my adding a second OS to an existing Win7 installation. The new unix OS replaced Windows bootloader with its own (grub) that allowed me to select either OS to launch from. This is what introduced the problem. I created my own problem because I did not think about my dual OS and shared drive layout before install and just used defaults. Because the unix install was targeted at a different drive than the previous windows boot disk the new bootloader was written to the new disk behind windows back. The BIOS boot order was also changed to the other disk. Sooo, it now boots to grub (on the "wrong" disk according to windows) which points back to drive C if I choose windows. BCD edit only knows how to read and use filse on the principle boot disk. This was changed behind its back. As far as windows was concerned it was still booting from drive c (which it was not) and BCD edit still tried to access the boot file there. They would not be found any longer. My solution was to remove the unix install (which was experimental anyway), restore the proper BIOS boot order, then use my Win7 source DVD and ran the repair/recovery stuff. It detected a "problem" right away it offered to fix for me. When I made the selection it fixed the bootloader and pointed back to drive c. BCDEdit now works which means DBP works fine too.
Lesson learned - DualBootPro is a UI on top of windows stuff. It provides a nice UI alternative to command-line tools. It does not REPLACE normal windows operations though, the underlying systems must be functional. As long as windows is working you can use it to add dual boot functionality but once windows is already hosed this is not the right tool to use to fix things.
If I was to do this all again I'd pay better attention to the UNIX installer and its choices about how it was laying it's volumes out and if it should implement grub or not.