A default installation of JBoss comes with 3 different server configurations. They are named "minimal", "default" and "all". You can find these folders under %JBOSS_HOME%/server/ folder. Each one of these folders represents a server configuration and has different components. Usually, you go for the "default" server configuration. If you want to deploy your application then you can place the application in the "deploy" folder present in either of these server configurations.
For more details about each profile, see this http://www.jboss.org/file-access/default/members/jbossas/freezone/docs/Getting_Started_Guide/beta422/html/The_JBoss_Server___A_Quick_Tour-Server_Configurations.html