This paper describes a post-layout simulation method using VHDL and C for verifying the architecture of antifuse-based FPGAs and the dedicated CAD system. An antifuse-based FPGA consists of programming circuitry including decoding logic, logic modules, segmented tracks, antifuses and I/O pads. The VHDL model which includes all these elements is used for logic verification and programming verification of the implemented circuit by reconstructing the logic circuit from the bit-stream generated from layout tool. The implemented circuit comprises of logic modules and routing networks. Since the routing delay of the complex networks is comparable to the delay of the logic module in the FPGA, the accurate post-layout simulation is essential to the FPGA system. In this paper, the C program calculates the delay of the routing netowrks using SPICE, elmore or horowitz delay models and the results feedback to the VHDL simulation. Critical path anc be found from this post-layout simulation results.