I am writing a middle tier application and the only user of the
actual Scala code is the application itself (there's an CORBA
like RPC for external processes).

So adding private and public visilibity qualifiers is for good code
design, not to keep the developers on the team out of methods they
shouldn't be using.

I would like to have the Scaladocs for the project document all
methods, public, private and protected, since the developers will
still need to know about private and protected functions since they
will use them in their work.

Javadoc has a few command line option that customize the output:

-public                   Show only public classes and members
-protected                Show protected/public classes and members (default)
-package                  Show package/protected/public classes and members
-private                  Show all classes and members

It would be nice if scaladoc grew similar options.

Regards,
Blair