I have a newsletter in InDesign. I have all the text flow marked. Each article is a separate "story". Story1 flows onto page 2, with the text flows linked correctly. On page 2, story2 begins in the text box below the end of story1.
So on page 2, why does accessble pdf read story2 before the second portion of story1?
I have the same behavior in the version extracted to EPUB.
Any ideas what I am doing wrong? or how I can correct it without having to create a single column of text throughout?
I've never seen that. In both accessible PDFs and EPUB, when I export all of a story will be read before going on to another object.
What version of InDesign are you using? If you're using InDesign CS5.5 or later, you can use the Articles panel to set the reading order for accessibility (or for EPUB).