This single-domed mosque is locally considered to be contemporary with Khan Jahan Ali style mosques of Khalifatabad, present date Bagerhat, Bangladesh. Based on architectural style the date of construction can be estimated to be early-fifteenth century.

The Bibi Begni Mosque is a Sultanate mosque; that is, a square structure crowned with a single dome. The mosque is situated on the bank of the Ghoradighi less than half a kilometer to the west of the Satgumbad Mosque.

The mosque is a square of 56'9" x 56'9" externally while internally it has a square plan of 32'9" x 32'9". The structure is a single chamber, roofed over by a hemispherical dome. The eastern façade has three arched openings to the prayer hall. The dome is internally carried on by four intersecting arches springing from stone pillars and brick pilasters attached to the side walls. There are three mihrabs, each aligned with the three entrances at east and the central portion of the qibla wall is projected westward from the ground to the roof. Stylistically this kind is known as Khan Jahan Ali architecture, commonly found in and around south-western part of Bangladesh.

The square structure is buttressed by four corner turrets. These turrets end at the level of parapet walls and ribbed in typical Bengali Sultanate fashion. The façades are capped by curvilinear cornices of pre-Mughal type. Exterior façades are of plain brick texture with arched opening. The central entrance of the eastern façade has a framed arched opening with terracotta design of jali motif. The central entrance is larger than the side ones which are slightly narrower and dwarfish. There are three terracotta multi-cusped arched mihrabs in the qibla wall; the central one is larger and the flanking ones narrower and dwarfish similar to the front façade. The central mihrab is flanked by small pillars with terracotta at the base and at the capital. 

The mosque was restored and repaired by the Department of Archaeology, Bangladesh, and is now a protected monument.