I'm not sure if this will help you, but try overlaying a hotspot over your video, and your learner won't be able to click on it to pause the video or anything. There doesn't have to be any special trigger or interaction in that hotspot - all you do is draw a hotspot over the video, then right click -> uncheck 'Show Hand Cursor', and it acts like an invisible wall. That way, your interactions will pop in the right time without your learners messing with your video playback time.
Another suggestion I can possibly give is to disable certain Player controls (not the video, but the Player itself) for the slide where you want to put that video, as a precaution