The building housing the Malindi Museum was bought from the Bohra community for 2,000 English Pounds after a longer period of occupation by the Medical Department who had used the building to serve as the Malindi Native Civil Hospital. After occupation by Fisheries department, the building became the office for Kenya Wildlife Services before it was handed over to the National Museums of Kenya in 1999. On 10th May 2004 the building opened its doors to the general public as Malindi Museum.
The building is a charming old double – storey structure with a roof terrace covered with roof tiles and is situated along the seafront, on an excellent site, some few metres from Malindi jetty and Fish Market. The museum currently houses temporary exhibitions. The museum also doubles as an information centre where visitors are able to find more information on attractions and happenings in Malindi.