Methods for fabricating integrated circuits are disclosed. In an exemplary embodiment, a method for fabricating an integrated circuit includes forming a silicon material layer over a semiconductor substrate. The method further includes forming a capping layer over the silicon material layer and over the memory gate stack, removing the capping layer from over the memory array region and the high-voltage MOSFET region, forming a second silicon material layer over the capping layer and over the first silicon material layer, and removing the second silicon material layer. The method further includes removing the capping layer from over the first silicon material layer in the logic device region and removing the first and second silicon material layers from the high-voltage MOSFET region. Still further, the method includes forming a photoresist material layer over the memory array region and the logic device region and exposing the semiconductor substrate to an ion implantation process.