Hi,
As per my understanding you wanted to add two sets of ailerons using "Aircraft Intutive Design" in MATLAB. You have added a new wing and can change the deflection to the original wing but you wanted to idenitfy the ailerons deflection in the second wing. Aircraft Intuitive Design (AID) toolbox in MATLAB only permits one set by default.
You can have a look at the below design for more understanding on ailerons:
Even if you can define multiple wings, still you are able to choose only one set of ailerons for your model.
Hope this helps!