The Transporter is an excellent choice. I think he's the best human driver here. This type of work is his job.
I wouldn't choose the X-Jet for two reasons: Storm pilots it and there are no weapons. The only means of defense would be for Storm to use her powers and that would totally distract her from flying.
Nemo's ship? Do you mean the escape pod or the Nautilus itself. The Nautilus isn't allowed here, it's too big.
Dude, the transporter hasn't encountered some shit like the Tumbler or a badass like McClane behind the wheel of a big armored truck. Transporter would drive really fast and make his car do cartwheels but he still hasn't taken down a jet with a truck as well as a helicopter with a car all in the same day.