Keith:
1) Please reply and hit “insert” and fill out system information
2) What app server are you deploying to? What version?
3) Try deploying as a packaged war. If you deploy as a exploded war I *believe* you need to setup the webapp yourself in your container, as it doesn’t recognize the app as something it should auto deploy (atleast this is my experience with Tomcat).
4) Run/Stop should be seen in the MyEclipse perspective, try right clicking on the button toolbar->customize perspective->other->MyEclipse-* (there is Core/DeployTools/WebTools)
Let us know if this helps.