If you use any css use browser prefixes for all platform.
Check out this thread for incompabilities but that is probably not your problem - What version do you have? 1.5 or CC? http://forums.adobe.com/message/5777240#5777240
I have Edge Animate CC version 220.127.116.118.26532. This is within the Adobe Creative Cloud subscription.
Any chance you could post or pm a link to your files?