I have seen JMS used in different commercial and academic projects. JMS can easily come into your picture, whenever you want to have a totally decoupled distributed systems. Generally speaking, when you need to send your request from one node, and someone in your network takes care of it without/with giving the sender any information about the receiver.
In my case, I have used JMS in developing a message-oriented middleware (MOM) in my thesis, where specific types of object-oriented objects are generated in one side as your request, and compiled and executed on the other side as your response.