You can use the regular page number for your book-level page numbering.
Normally, you can use a numbered list for the chapter-level numbering. However, you mentioned a problem with conditional text. If I have time later today, I'll check this out, but make sure you apply the condition to the entire paragraph, not just the text.
David Creamer: Community Expert, Adobe Certified Instructor, and Adobe Certified Expert (since 1995)
I used a numbered list as the chapter page numbers in linked frames. They are shown on top. The traditional book page numbers from the master pages are on the bottom. I think this is what you are asking for?