Currently, XWiki allows only one method of authentication to be enabled. This means that using LDAP disables the normal XWiki users.

This is an error in the architecture, and I vote for changing this. Instead of using only one authentication/rights mechanism, we should have a list. When trying to authenticate a user, all the registered authenticators should be used, until at least one correctly identifies the user.

This should be better planned, so that in the future no other changes should be made.

Sergiu 
You have just described JAAS.