Large documents and contents-errors in text - for thesis

Question

Hi - i´ll try to make it short. (quite experinced user on Mac and Pages - but hates Word)
Large document like master/PhD on Pages 09 Version 4.1 (923) (using EndNote X4 for bibliography - but EndNote is not the problem! I tried it without...) - more than a hundred pages. (now with Lion 10.7.2 it seems to be even worse than with SLep).
Content is numbered with up to four "levels" (like: 2.3.1.2 Xxxxxx). I seem to make a lot of things right because the content at the beginning of the document is correct with all the points (just the content is 4 pages long - and everything including the page-numbers is correct) -
BUT:
In the text most "sub-/headlines" or new points are correct - but some are just very wrong like:
it should be 8.3.2.1 - instead it is 8.3.6 or even 2.1 - and everytime i try to change it its just wrong in another or the same way... - but in any case (as long as i am doing it right with tabs and using the right level) the content at the beginning of the document is correct.
That is exactly why i hate Word - it just did the same crap (but Word also mixed up the footnote-numbering - in Pages 09 at least all the foodnotes are right).
Any idea? - the next thing i will try is just to copy every paragraph into a new document - but i doubt that it will help - is there anybody at apple who could help???
Greetings
simplex

Answer 1

I didn't answer either because I found your writing impenetrable and without the file to work with improbable we could talk you through it.
It sounds to me like you have simply skipped a sequence somewhere and it has lost track of the numbering, or you got it to restart somewhere in an attempt to 'fix' your error.
Peter