I had the problem with Acrobat 6 Pro. I put a toolbar into the header of
every one of my MSWord 2003 documents.  The unwanted toolbar offering
redundant Acrobat functions disorganized the other toolbars and made the Word
screen smaller.  And generally it upset me by bollixing up format.  

I went to a site called Betalogue and found that smarter people than I were
also vexed at this problem.  In any case, those folks told me to go to the
"MicroSoft Office" folder among the Program files and, inside that, find a
folder for "Office" (which in my machine is the "Office11" folder), and
further inside that find a "Start-up" folder.  Inside the "Start-up" folder
there's a file called "PDFMaker.dot" that governs what toolbars are available
on the top MSWord documents when you open them.  I found that by creating a
folder named "PDFMaker.dot" in the "Start-up" folder and by putting the
"PDFMaker.dot" file in the folder of the same name, then I could get rid of
the unpleasant Acrobat6 toolbars in my Word documents.

Put file "PDFMaker.dot" back in "Start-up" folder, and the Acrobat functions
become visible again at the top of every newly opened Word document.

HOpe this is in some way relevant to your problem