When creating a PDF in Acrobat Pro it seems to change my reference numbering system???

I am trying to create a PDF file using Acrobat Pro trial version (before I buy it I need to know if it works for me).  The file I am using is a condensed version of a report so it has some of the tables/figures omitted and therefore the numbering sequence isn't sequential ie.  it can jump from Figure 9-2 to 9-4.  For some reason - when creating the PDF - the program is CHANGING the numbering system of the original file in the body of the document - but the Table of Contents keeps it how I had it.  HELP??!!!  How do I make it just create the PDF exactly how it is in the Word document file without automatically making any changes like that to it?!
I have tried several ways to create the PDF - in Word - I tried doing it as a Print command, also in Word I tried doing it from there, also I tried creating it from a file right in Acrobat Pro.  I also tried "protecting" the document first - but this didn't work either.
Thank you so much to anyone who can help!

You might want to specify what kind of graphics are giving you problems.
Frame drawings or imported files? If imported, what file type? RGB or
CMYK? Any spot colors?
The best graphics are EPS because FrameMaker passes them around the
Windows GDI unchanged and EPS files can retain spot colors, too. Other
types of graphics get passed through Windows GDI and converted to RGB
where the result can sometimes be astounding. In Save as PDF, what's the
setting for "Convert CMYK colors to RGB?"
Check also "GetLibraryColorRGBFromCMYK=" in maker.ini and change it from
"Printing" to
"None". That seems to get the best results for having what you see on
screen match what ends up in the PDF.
There are also color management settings in your Distiller .joboptions
file that can affect the result. Usually, you want to set Settings>Edit
Adobe PDF Settings> Color> Color Management Policies to either "Leave
Color Unchanged" or "Tag only Images for Color Management."

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