Were the index entries added within FM, or were they imported along with text from another app (e.g. Word)?
If you want to get really forensic about it, I'd save the file as MIF and then us the freebie MIFBrowse
http://www.grahamwideman.com/gw/tech/framemaker/mifbrowse.htm
to look at each entry (if you haven't yet looked at MIF it can be a bit "dense" to digest, but the best thing is to first search for a reasonably unique word that might be just prior to the entries and then move downward through the display until you find the index entries).
Or, if time's paramount, I'd just delete the entries, Save, then recreate them, being extremely careful that there aren't any differences in them, and update.
Another lesser possibility might be if the index's reference page has been inadvertently damaged -- you might try adding a brand new index to the book, and see if it generates correctly.
Edit: about the other issues, please post separate forum threads ("topics") for each one, otherwise it's hard for everybody to offer advice if multiple problems are being addressed in a single thread. And, it always helps if you specify exactly what version of FM you're using (from Help > About, the "pxxx" numbers) and your platform + service pack level, too, it helps avoid lots of confusion.
Sheila
Message was edited by: Sheila