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well the basic problem is that indesign will represent things internally in a fixed layout fashion. So whe you add an image to a page, it will represent the position of the image as "10cm from the top and 3 cm from the left" instead of "indetween the sentences so and so" as would be neccessary for reflowable documents.
THis particular problem is relatively easy to fix, however, the point is that the whole of indesign probably make assumptions like that and fixing the whole thing is going to be a rather non-trivial task.
A more philosophical issue is that you often dont want the sorts of structures you create for a fixed layout in a reflowable one. This is because things that look good at a certain page size, dont, at a very different page size. As a result your design tool needs tohelp you to design and preview your document at various page sizes.
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