I'm using FB 4.0.1 and CS5, this usecase seems to work for me. I also deleted the project and checked, it asked me to create the project and file again, but when the file was already there it did not ask.
Is there any other step that was there when you encountered this issue?
I didn't remove the project or delete any of the files.
All I did was create the class file under a package that is not the default package. Then when I clicked on the Flash symbol's "Edit Class" It asked me again to create the same class file.
Only if I create the class in the default package, it won't ask me to recreate it again.
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Yes got it, filed http://bugs.adobe.com/jira/browse/FB-27193 for you to track.
The workaround is to set the package of the class in the symbol properties, that way it will remember it. For example enter the class name as com.mycompany.myfiles.Class1 in the symbol properties for the class name.
Thanks for the help.