Harmony Flats was originally established to preserve a habitat for the rare and declining geometric tortoise (Psammobates geometricus). This tortoise is now locally extinct, but the reserve still protects about 220 species of plants (many of them endangered)[2] as well as a range of animal species, such as the tiny parrot-beaked tortoise (Homopus areolatus), various snakes and a large variety of birds. This is one of the few remaining spots of the critically endangered vegetation type Lourensford Alluvium Fynbos.
Local volunteers and community organisations are now heavily involved in protecting and managing the reserve.[3]