I guess villain is not a correct word for him, He does care for his son, he feels Ani accepted bon under pressure, as per him Ani did mistake and now he is trying to fullfill a relation, which is made because of mistake. I believe the day he realised that Ani accepted bon wholeheartedly, and Bondita will prove herself that she is not only deserve to be Anirudh's wife but Roy Chowdhury's bahu too. That day he would accept her wholeheartedly.
I agree Binoy cares for his son but I guess he won't accept Bon so easily because status is more important for him.