Hi Adnan,
Personally, I would go for the Type S Zero since you are going to mod the car anyway. Performance wise, there should be not too much difference between these cars although the Type R would probably be a little faster on a track when driven by an experienced driver. Remember, even the 1992 Type R was 5 seconds FASTER than Porsches best test-driver could do in a Porsche 911 Turbo and at that time that P911TT already had something like 360 HP, way more than the NSX.
BTW, if I would mod a NSX as much as you plan to do, I would go for the NA-options than SoS offers rather than a turbo-kit. I know that a twin-turbo will in the end give you more power, but I just feel that a top-performing NSX should be a NA car rather than a supercharged or turboed-car.