Antiferromagnetic (AFM) skyrmions exhibit a variety of outstanding features, including stability, non-volatility, processability, and resistance to the skyrmion Hall effect (SkHE). However, AFM skyrmions are insensitive to an external magnetic field, posing a major challenge for controlling their size. Tuning the key magnetic properties in AFM thin films is a feasible method for controlling skyrmion size, but it may also adversely affect other magnetic characteristics, such as the velocity and stability of the skyrmion, especially for small skyrmion sizes. In this study, we have investigated the size controllability of AFM skyrmions in the presence of the Dzyaloshinskii–Moriya interaction (DMI), applying a pure spin current in a bilayer structure consisting of a 2D AFM nanodisk placed over a thin coating of heavy metal (HM). The method relies on destabilizing the AFM lattice by targeting the 2D AFM nanodisk in a specific area defined by the diameter (dtr) using spin-polarized current-perpendicular-to-plane (CPP), causing a localized magnetization precession induced by spin-transfer torque (STT). As a result, a series of AFM skyrmions of different radii was stabilized depending on the diameter used without resorting to re-tuning the magnetic characteristics of the material. Moreover, we have found that for strong DMI, robust AFM skyrmions of small sizes can also be generated by adopting small diameters. Besides, the impact of spin current and nucleation time has been examined, and it was found that adjusting these parameters does not help to fine-tune the skyrmion size as much as it affects the nucleation process. Finally, we demonstrate how this method may be used to adjust both the radius and site of the skyrmion in the 2D AFM monolayer by simultaneously targeting different locations using pure spin currents. This method allows us to tune the AFM skyrmion size and to directly address the target skyrmion without disturbing the surrounding magnetic environment. Therefore, our results may pave the way for high-functional spintronics applications based on AFM skyrmions.