The Kottakkavu church history museum is to come up on the edge of the canal. Being a narrow site on the road side, the site has its frontage along the river. Being a church museum, a mural of St. Thomas, at the far end of the site is planned. The museum is divided into two separate blocks - amenities block in front and the museum block at the back. The front block, consists of the reception, ticket counter and toilets in the ground floor and a café in the first floor overlooking the water body. It is a simple building, quite smaller in proportion compared to that of the museum. A trellised pathway connects the front building with the museum block. The museum is at two different levels with greater wall heights. A small water channel branches into the site. This water body is developed into a courtyard overlooked by the central part of the galleries in both the floors.