Ok.
I found something that works, albeit I don't think it is the recommended way. But since I can't find a recommended way, I will settle for working.
1. Create a new schema under a different name.
2. Go to the module that has a bean that is using the old schema.
3. Find the reference for the bean under the module and look at the properties for the bean.
4. In the properties in the Sun Java System As section there is a property called Mapped Schema. Change it to the new schema.
5. deploy
There's more...
If you need to have the same name for the schema, like I did because I keep it in CVS, do this:
6. Shutdown the
IDE 7. Go to the directory where the schema is and rename it to whatever you need (whatever you had originally).
8. restart the IDE
9. repeat steps 2-4
10. restart the IDE again before you deploy!
I know this is insane.
But it is all I could figure out so far. If anybody has something else that is better, please, please, please let me know!