The two-storey, half-timbered main building was faced with brick in 1836 and a central tower in the front was added in 1868.

Kjærstrup is one of the oldest manors on Lolland and was originally located in a village by the same name which disappeared in the beginning of the Middle Ages.

On Gøye's death in 1617, Kjærstrup therefore passed to his sister-in-law, Karen Skram, the widow of Laurids Brockenhuus of Bramstrup and Egeskov.

Emerentia von Levetzau bought both estates back in 1732 after Niels Rosenkrantz Schack had passed away without children the previous year.

His widow, Charlotte Emerentia Rosenkrantz-Huitfeldt, managed the estates after her husband's death with assistance from her nephew, baron Gottlob Rosenkrantz.

She wanted to endow the estates to the nephew but this resulted in a legal dispute with the Raben family which had still not been settled at the time of her death in 1843.

The centrally located tower on the facade was built in 1868 under supervision of the architect Ove Petersen.