If I'm understanding what you're saying, then yes/no. The turbo has to get the air it compresses somehow, and this is from the intake side of the turbo. This intake air still has to be filtered, so it comes from the airbox and is piped to the intake side of the turbo.
I'm sure you'll see lots of people getting a cold air extension to allow less restricted air through. I'm sure you'll also see these people getting better gains with adding the extension than those with stock MP3s. That and a bigger exhaust and a boost controller, people will be able to get a lot of HP out of the MSP for cheap!
Chris