If you think you will want to go back to the old DB or want some stuff from it, just start a new DB and change the database in db.ini to match.
It is really easy, and you don't risk corrupting any of the blob data (characters, and items come to mind) I am sure there is a way to output the blobs right, but I am too lazy to find it right now :p
The file produced from mysqldump is the same type as comes with the Emu, so you just create a database, use it and source the file back in.
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