1. How would you get a JMS queue running in a shop that requires everything to run as a webapp in a Tomcat container?
The HornetQServer can be bootstrapped any way you want, I dont know much about Tomcat but you just need a hook to create the HornetQServer and JMSServer as in the example.
2. If the answer to #1 is to do something like EmbeddedExample, where would you look for details on configuration options?
The configuration.java object bsically maps onto the configuration schema so you can just use the normal usr manual