Usually, it is the area of the active layer (photoanode) that decides the cell area. Best performing counter electrode for DSSC has been Pt. This is usually prepared by drop casting solution of H2PtCl6 in ethanol on FTO, followed by sintering. Since the contact angle between FTO and ethanol is small, it spreads uniformly over the FTO. Hence the active area is not limited by counter electrode but by photoanode. You can just scrap out the excess active layer to form a square of desired area. Hope this helps