Pics would help a lot so we all can see what you are talking about.
Even a short vid on you tube or?

You can run a long tube.

Some, STS sytems have the turbo a long ways back from the engine compartment.
http://ststurbo.com/
The turbo is far away & they still make a lot of power.
here is an STS 04 GTO
http://www.youtube.com/watch?v=izQgzlrDq20

I have suggested to run a exhaust pipe to the passenger side & place the turbo on the passenger side if you want more room.

I am not suggesting for you (snowman) to run a set-up like this, it's more complecated & costs more.
http://www.youtube.com/watch?v=xnFA93_U9hY

Lots of options.

MBHD

12 port SDS EFI