For those folks wondering about the empty database in their cPanel (should they have it), the following explanation was provided by cPanel:

Build 21703 provided two fixes that create the behavior being described in this thread. Earlier I posted these, but here is a more thorough description.

Prior to build 21565:
1. And any all accounts restored from backup (and transfers) would have an empty database created. This database name was the same name as the user (e.g. user name is cpken, database name thus is cpken). This database creation was not intentional, it was a bug.
2. Databases that were the same name as the user (user name is cpken, database name is cpken) were not accounted for in the tally of databases used by an account, nor were they displayed in the interface.

Builds 21565 and newer:
1. No longer creation the empty database upon account restoration/transfer
2. Display and account for all databases associated with a user name.

With that said, users currently cannot delete a database whose name matches the user name (db name of cpken as opposed to cpken_name). This matter should be attended to in the next build(s).

In other words, it’s a woops, and you are unable to delete the database yourselves. Just submit a support ticket, and we’ll nuke the little sucker for you.