There are estimated to be approximately 700 elephants in the reserve. This population is unsustainably high – it causes significant damage to vegetation, threatening the endangered plant life. Conflict between humans and elephants has also reached critical levels. North of the Reserve, the Mwaluganje elephant sanctuary has been established to provide a route for elephants to leave the park. The remainder of the park boundary is fenced to prevent the elephants from invading farmland. The Kenya Wildlife Service has plans to relocate up to 400 elephants from Shimba to Tsavo East National Park in 2005.
Shimba Hills contains Kenya's only population of Sable Antelope. There are about 100 in the park.