Update placed PDF files to recognize transparency

I have used Croptima InPlate to create an imposed cut and stack imposition of a large 3800 variable data project. Due to the size of the file, I've only imposed the black plate variable data. I want to use Acrobat's add background tool to add an imposed master graphic of the rest of the file image (the black-only variable text will overlay the other elements).
Croptima has done a great job with the imposition, however it has placed all the files in the layout with a white backround (not transparent as is resident in the source PDF file. When I try to add the main background in Acrobat the white boxes from the PDF mask out the background image. I can manually remove the boxes in Acrobat one at a time, but doing this across a 6-up, 640 page document makes for quite the undertaking.
My question is if there's a way in InDesign to update all placed PDF files to display with a transparent background instead of the opaque background.
The relink feature with import option won't do it document wide, it wants to individually prompt for every graphic and won't retain the page assignments.
I found a script on the forum which will update each link to a transparent background individually, but I have to manually enter in each page number of the imposed PDF ... also a huge time suck.
Does anyone know of a way to change the placement properties document-wide of a single, multi-page placed PDF to a transparent background instead of opaque?
Or... does anyone know how to get Croptima InPlate to place PDF files with a transparent option?
Thanks in advance.

I had to chime in:
First to help out if BLUDVLZ24 would like to test drive Quite Imposing Plus.
Here is a temporary number so you can test drive it yourself. Just go yo our site www.quite.com and download QIP and use the following Serial number and private code.
Quite Imposing Plus V1/V2
  Expires end 3/2010  Serial 0783-6227-0032-4682  Code 6826
Second to help out Mr. Met:
If you have any trouble understanding Quite Imposing Plus you should have emailed us at [email protected] we would have been happy to help.
Also, there is a Getting Started tech sheet within the program (instead of reading the entire manual - which may have caused your dislike of QIP)
Once loaded, please Check out Getting Started tech sheet. Go to our Imposition Control Panel and click on the ? button.....
then click the Getting Started button.Also, lots of good information on signature setups Step-by-step Instructions and New features.
Also, take a look at www.quite.com/imposing/techsheet too-it has some other tech step by step sheets - note: cut-stacks tech sheet is there for you to look at. 
cheers,
Charles
Charles James
Technical/Marketing Director
Quite Software
USA
858.581.9143
[email protected]
www.quite.com

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