The present invention relates to an apparatus and a method for fabricating a microcapsule, more particularly to an apparatus and a method for fabricating a microcapsule, which enable to encapsulate uniform cell number in a microcapsule through cell distribution, improve cell viability in the microcapsule through fluid exchange, and ensure uniform microcapsule size.The apparatus for fabricating a microcapsule according to the present invention uses a plurality of microchannels which are spatially connected with one another and are designed such that fluid flows through them in a particular direction, and comprises a cell supply unit which supplies a fluid mixture of cells and a cell dropletizing material; and a droplet forming unit in which a dropletization inducing fluid supplied from one of the plurality of microchannels joins with the fluid mixture of the cells and the cell dropletizing material to form a droplet.