Rumeli Fortress Museum is closed on Wednesdays. On other days, the museum is open between 09.00-16.30 hours. Entrance fee is 5 YTL.
Anatolia Fortress is not open to public visit. If you like, you should just see the outer walls of the Fortress.
You should just see the view of the Maiden’s Tower from Üsküdar or you should take a boat to the Tower. Also you should have a dinner there with a reservation.