Why do colours change in PDF created from InDesign book?

Please help.
I've created a Book from 5 InDesign documents that have images text and some Illustrator drawings in.
When I export the Book to PDF some of the colours in the Illustrator graphics are different (the graphics are all vector based maps with some text). Not all colours are changing, seems to be different blues showing as one green in the PDF.
Same thing happens when I print the Book from InDesign.
Could anyone tell me what I'm doing wrong.

Help!  I too am having problems when creating a pdf in InDesign.  My colors are all Pantone process colors.  My specific problem is that when I export my book cover to a PDF, my process black is changing to gray.  This ONLY happens with pdfs.  When I save as a jpg things are fine.  It will print fine.  I have been scaling it down, but i prints black.  Help!  This is a project due for a typography class on Monday and must be printed and mounted for class.
Mary

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