I'm going to preface this by saying that if you are concerned get your baby to the vet.
Now...most likely what you are hearing when he stops dead and does it is he is calling for another glider...or you. Is he alone?
Here is a page that lets you listen to different sounds that they make.
http://www.sugarglider.com/gliderpedia/index.asp?Sounds
Upper respiratory infections generally have a pop at the end of both the inhale and the exhale and it is with EVERY breath. The fact that he is only doing it now and then does not sound like a URI.
However, if you think that it's not normal please get him to the vet.