Exporting presentation with movie clips .

I want to export for sending to CD but movie pictures end up twice as long and freeze after playing.
The movie clip was created from FCP and also iMovie.
I have added a transition to the movie slide and this seems to cause the problem. It appears to double the length of the slide (if original movie was 5 secs it becomes 10secs).
I need the CD to run the presentation automatically.
The export is for QuickTime, Manual advance, Full Quality,Large .
I have spent 2 days on this and I am going crazy, not sleeping! You know it all!
Help please. 
I hate to mention this but I tried the same thing in PowerPoint (ugh) but the result was the same.
Products iMac and

Presumably you are creating a self playing movie:
1- Inspector > Transitions > start transition select; automatically and set the delay to match the duration of the video
2- in the export dialogue box, delete the slide duration values. The timing from each slide will be now used instead.

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