Oceanview, the continuous command for the mod wheel is done in the score part itself, not in VI Pro. VI Pro is simply set up to receive the command (the default for the mod wheel in VI Pro is a whole step). Thus, in your score, in the 2nd violin part, setting the mod wheel to +8191 (the max adjustment up IIRC), will raise the pitch of the part a whole step when played back (again, if the default in VI Pro is left at a whole step, i.e. 200 cents), bringing the pitch of the transposed part back up to correct concert pitch (example: score in E major, transposed 2 violin part moved down to D major, with mod wheel adjustment sounding in E major, using samples a whole step lower than the first violins).
If you end up getting VI Pro 2, using the 2 violin parts in VI Pro 2 would be the far simpler way to go, as all the needed adjustments would automatically be done for you behind the scene as it were, without the need of any manual adjustments on your part.