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Hi Javier
I am just about to do this also not because my prefix was the default but because the old prefix was compromised.
Could I ask how the editing of mainfile went, was all OK and a smooth changeover? Did you close your site for changeover? I think I would need to as we are quite busy site.
As far as I can see there is no reason we should not delete the the old tables, the system no longer reads and writes them anymore once mainfile is edited after all.
This is just a beginers opinion though, having had one database drama I do not wish another so I am going to wait for a more qualified answer.
Regards