Flash movies in Presenter 09

Hi,

My PowerPoint presentation has various slides with  audio and a flash movie per slide. The flash movie has been set-up to start after the audio and this did work when I initially set it up and published to CD. However, I now have to publish the same presentation to Web.

From my understanding I need the original PowerPoint file, audio,flv etc to republish to web. Is that correct?

So far I've had to relink the audio and attachments files as the directory structure on the C drive wasn't the same (due to rebuild). When I set up the flash movie exactly how I did the first time it isn't playing straight after the audio even though I set the delay option. When I try the same this in a new blank presentation it works.

Is it possible my PowerPoint presentation has become corrupt?

many thanks

Ali