After you have the J2EE plugin installed, you should be able to go to File -> Export -> Other -> Java EE -> ...
I can tell you that I at least have the option to do so in my FB4 (after I installed J2EE plugin), but anything beyond that is beyond my area of expertise...
Looks like WAR is under Web as well.
I also bet these items show up in the main menu if you are in the Java perspective...
My Flash Builder doesn't have a "web" option for export. It's not under the General, Flash Builder, Run/Debug or Team options that I have. I'm not sure what java plugin to use.
I have the eclipse web development plugin installed in my FB4, so that's probably why I have the option on mine.
You can install it using the Galileo update site I gave you on your other thread.
I'm not sure what I should be downloading. It looks like there are various pre-built combinations of Eclipse with java, php, etc. But I don't see a plugin specifically to add to an existing Eclipse (read Flash Builder in this case). I'd want the java for java development, something that makes an EAR and WAR, and something that could connect ClearCase to FB4.