I agree that it would be worth seeing if the large number of sections can be minimized. If the point of the footers is to keep certain information at the bottom of the pages, perhaps a two cell table could be used, with one large cell for most of the data and a "footer" cell. Or three cells if there is a header also.

For trouble shooting you could delete sections (working with a copy) and see if the problem goes away. If it does, or if there is a change to the number of pages you can print, it could be that there was corruption or some other anomaly in the deleted section. It may be possible to narrow it down that way. You may have tried some detective work already, but I'll suggest it just in case. I have known a single issue to ripple through an entire document.