I have a 6-page interactive indd template that I have been using for months without any issues (well, not these at least), but recently it has been not linking multi page pdfs properly. The pdf that I use is always saved from illustrator cs6 and correlates page to page with the indesign file; page 1 in the pdf links with page 1 in the indd and so on... The issue I am having is that almost every other time I link the file up it behaves differently. Sometimes it will link one page of the pdf to all of the pages of the indd while showing that they are linked to different pages, other times it will not show up at all on the pages, but will show that it is linked in the links panel. Sometimes it will only link one of the pages up and leave the other 5 blank or it will link the pages up with some sort of transparency...
Now, I am not sure if this is a problem with Illustrator or Indesign because of another symptom: Sometimes when I save the file as a pdf it saves as if it is not a multi-page pdf with different content on every page, but rather a multi-page pdf with every page being a zoomed-out view of all of the artboards together but with only some of the content showing (only artboard 3 and 4, only artboard 6 and half of 1) when it is opened in acrobat. Also, sometimes the pdf when viewed in acrobat looks perfect, but when linked it only does a few of the pages in indesign.
Long story short, this doesn't make any sense... I know this is hard to follow and I don't understand why or how it is happening because it seems that every time has a different issue.
I know that you'll probably have questions and I’ll do my best to answer them, but I'm afraid that uploading files for samples won't work because there appears to be nothing wrong with the files themselves... just the links and/or export.
Win7, CS6 , 12 gigs RAM, i5