After removing silence and then gluing the track back to a single audio file I do not get the message . "non-contiguous region from all these" .. it glues it back as the original unedited file. Is there a parameter I have to uncheck to get this to happen?

Hi MrTeleportal, I didn't had the time to watch the 201 tutorial yet... sorry! However, I know that you won't get any dialog if you use the Strip Silence function and then the Glue tool without changing the position of any of the regions. You will only get back to the original file because there would be no need to create a new audio file. If you move or quantize any of the regions, then you will get a dialog asking if you want to create a new audio file. I hope it helps!