Hi Kaz,
I'm waiting for an update on this item too. I'm no expert but it appears that Apple have it in for Adobe (starting with the bold move to not support Flash ... which Adobe thought it could overcome with HTML5 animations, but now Apple has found a way to nip that one too - by not supporting anything made in Edge Animate). If you want to see the tone used in the Apple forum on this topic, check out the responses from 'K T' here: https://discussions.apple.com/message/19395276#24471966
I don't work for an IT company. In fact, I'm a relative novice to the world of HTML etc. Like you, I thought there must be a way to overcome the problem by NOT inserting the OAM file but instead inserting HTML5 into InDesign (http://my.safaribooksonline.com/book/web-design-and-development/9780133480061/13dot-creati ng-an-interactive-document/ch13lev1sec21and then including the JS files when outputting the file to EPUB3.... Then once saved, opening the EPUB zip file and adding the extra media files, plus updating the manifest information (list of files), after copying this from the list output from Edge Animate if you choose to export for iBooks. Clearly there was some experimentation to be done (by one without much experience with this stuff!) but I stopped very early into it when I looked at the output files from Edge Animate. They all make reference to the name 'edge'. So copying those files into the EPUB folder probably wouldn't have overcome the Apple problem, as I can only suspect that iBooks is now coded to identify that word in scripting files and then ignore those files.
What a pain!
Meanwhile, if Adobe can't find a way around this, they shouldn't advertise or build an expectation that Edge Animate output can be used in iBooks. The silence on this topic is concerning. If Adobe don't make the next move in this horrid game with Apple, others will soon fill the void for interactive EPUB3 programs, such as PubCoder, BookCreator (redjumper.net) and Aquafadas.
Adobe, any comments appreciated, even if they are to correct my assumptions.
HangoJango.