I've noticed little differences with the CGs, but glasses being there or not sounds like a very noticeable one. I always choose for him to have glasses, but I choose his updo with cartilage ear piercings and in the CGs he doesn't have the piercing.
I imagine they just haven't fully updated all the CGs to implement all the choices yet. Maybe think of the glasses as driving glasses? That way after ORCA it's like he just forgot to take them off, too.