The present disclosure provides semiconductor structures and fabrication methods thereof. An exemplary fabrication method includes providing a plurality of fins on a semiconductor substrate; forming an anti-diffusion layer, containing anti-diffusion ions, in the fins; forming an anti-punch through layer, containing anti-punch through ions, in the fins, a top surface of the anti-punch through layer being below a top surface of the anti-diffusion layer, and the anti-diffusion layer preventing the anti-punch through ions from diffusing toward tops of the fins; and performing a thermal annealing process.