The disclosed systems and methods are for performing digital separation of teeth. The method includes: (i) obtaining a 3D digital model of two adjacent teeth, wherein the 3D digital model includes a first set of elements comprising first tooth elements and second tooth elements, (ii) generating a separation plane relative to the two adjacent teeth by: obtaining a second set of elements associated with a separation zone, identifying a third set of elements which are a subset of the second set of elements, and determining the separation plane, (iv) performing the digital separation by generating a first cutting plane and a second cutting plane, and (v) updating the 3D digital model by removing the first tooth elements and the second tooth elements which are between the first and second cutting planes, and (vi) storing the updated 3D digital model in a memory.