I’m not using the plugin anymore but from memory you will need to convert all your videos to the .mp4 format and the shortcode should look like this:
[S3_embed_video file=’Module01.mp4′]
Just replace Module.mp4 with your file name. Originally I was using files that were .mov and created with my Mac, but it didn’t recognise QuickTime files and I read somewhere that you should convert them to .mp4.
And the other thing is to switch between the Flowplayer option and the VideoJS options in the Plugin Settings. And also make sure all files as set as “Public” as described above.
Good luck.