I wouldnt worry about the clutch, it will hold fine.
As for the boost controller, you dont need to know how to use it really because the tuner will/should give you the best result with it anyway, just say what PSI you want to run on hi and what psi on lo and you should'nt have to modify it after that. I for one have the profec 2, looks nice and works 100% fine.
I would recommend getting the fuel pump done beforehand. My car ran lean on the dyno because of a dying fuel pump so I had to buy a fuel pump off them and pay them to install it so that costed quite a bit of $.
The tune made a huge difference in power, then it got boring after 3 months