Combined nano- and mesoscale simulation of chemical ordering kinetics in nano-layered L10 AB binary system was performed. In the nano- (atomistic) scale Monte Carlo (MC) technique with vacancy mechanism of atomic migration was implemented with diverse system models. The mesoscale microstructure evolution was, in turn, modeled by means of MC procedure simulating antiphase boundary (APB) motion as controlled by APB energies evaluated within the nano-scale simulations. The study addressed FePt thin layers considered as a material for ultra-high density magnetic storage media and revealed metastability of the L10 c-variant superstructure with monoatomic planes parallel to the (001) free surface and off-plane easy magnetization. The layers, initially perfectly ordered in the L10 c-variant, showed homogenous disordering running in parallel with a spontaneous re-orientation of the monoatomic planes into a mosaic-microstructure composed of L10 a- and b-variant domains with (100)- and (010)-type monoatomic planes, respectively. The domains nucleated heterogeneously on the Fe free surface of the layer, grew discontinuously inwards its volume and finally relaxed generating an equilibrium microstructure of the system. Two �atomistic-scale� processes: (i) homogenous disordering and (ii) nucleation of the L10 a- and b-variant domains showed characteristic time scales. The same was observed for the meso-scale processes: (i) heterogeneous L10 variant domain growth and (ii) domain microstructure relaxation. The above phenomena modelled within the present study by means of multiscale MC simulations have recently been observed experimentally in epitaxially deposited thin films of FePt.