My motor is 3.58" stroke, & with a 9.0 Deck & a small chamber on the head, that is all the stroke I could run to keep the CR low enough for turbo. Mine's 394 inches..
If I had it to do again I'd have done a tall deck with at least 440 inches, so the motor was more responsive/had better TQ off boost down low & would'nt have to turn as much RPM. But I already had a brand new 9" R3 so... that's what I built.
That's why the large CC combustion chamber heads like an INDY have an advantage over something like my W9RP's with a 39 CC chamber... I could have ran hair more stroke if I had a bigger chamber even with the 9.0 deck.
How much difference in torque are you talking about?
Is issue you see relative to street action or only a factor on track? Auto or manual trans?
For turbo street duty would think your combo would be more than enough with manual trans.