[4][9] In 2013 Malindi Museum acquired a second set of buildings: the former offices of the District Commissioner, about 300 metres northwest along Silversand Road.

[10] Malindi Museum also has responsibility for two other heritage sites in the town: The Vasco da Gama Pillar and The Portuguese Chapel.

On the ethnographic section, the museum contains various artefacts of the Mijikenda peoples who are ethnic groups inhabiting the Kenyan coast, including wooden totems,[5] as well as ancient artifacts that belonged to Arabs who settled in Malindi.

[15] The House of Columns has exhibits from the Portuguese period of Kenya's coastal zone, as well as photographs of some of the country's archeological sites.

These are: The Vasco da Gama Pillar, The Portuguese Chapel, The House of Columns and the Malindi Museum Heritage Complex.