MS Word Track Changes and Acrobat Merge into a Single PDF

I am using Word 2007 to create a group of about 50 files that are being collected with Acrobat 9 Standard Merge Files Into a Single PDF feature.  I need to control whether the track changes in the word files are carried over to the PDF.  Said another way, I want a singe PDF with the track changes showing and another PDF witht he track changes off. Currently, the track changes are being filtered out (accepted) in the merged document.  Strangely, when printing a single document with track changes, the track changes show in the PDF.
I understand I could print each of my 50 files individually and then collect them with the merge feature, but I am hoping to take advantage of the automation.
How do I control the track changes printing / not printing?
Thanks for the help!

Thank you for the comment!  If this is the best Acrobat can do, I will just have to lower my expectation.

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