Exporting Flash Files (which contain embedded movie clips) to Quicktime!

Since the recent Quicktime upgrade to 7.1.3 I have had trouble with the
animations I've made in Flash and exported to Quicktime. Most of the time,
my flash animations require flash movie clips embeded in the flash timeline.
In the past, when I have exported these flash animations as Quicktime files,
there is no problems, but now, since the upgrade, the export does not play
back properly, and it is obvious that Quicktime is unhappy with these
embedded clips within the flash timeline. Is there a way around this
problem? A way for me to maintain embedded movie clips in my timeline and
still export a working Quicktime file!?!

I've never mastered Flash but I know a lot about how QuickTime works.
I do know that some Flash features are limited to specific "publish" versions and some newer ones are not supported in older publish states.
Could you export two files (background and focus object) and test the actions?
QuickTime uses "layers" (lower layer numbers are on the "top"). Adding multiple layers to a .mov file is easy with Pro but Flash tracks that contain mouse actions must be on the top layer. If the track layer is behind another it may still appear (via transparency) but not be able to hold mouse actions.
One of my "movies" that uses Flash tracks and sprites:
http://homepage.mac.com/kkirkster/C/

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