The honeycomb lattice iridate Na$_2$IrO$_3$ shows frustrated magnetism and can potentially display Kitaev-like exchange interactions. Recently, it was shown that the electronic properties of the surface of crystalline Na$_2$IrO$_3$ can be tuned by Ar plasma treatment in a controlled manner leading to various phases of matter ranging from a fully gapped to a metallic surface, where the possibility of a charge-density wave (CDW) like transition is also expected. Here, through direct imaging with an atomic force microscope (AFM) in air, we show that the surface of crystalline Na$_2$IrO$_3$ evolves rapidly as elemental Na effuses out of the interleave planes to the surface and undergoes sublimation thereby disappearing from the surface gradually over time. Using conductive AFM we recorded a series of topographs and surface current maps simultaneously and found that the modification of the surface leads to change in the electronic properties in a dynamic fashion until the whole system reaches a dynamic equilibrium. These observations are important in the context of the exotic electronic and magnetic properties that the surface of Na$_2$IrO$_3$ displays.
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