If you just want to go a step beyond a few logic gates and adding machines, which any old electronics CAD/simulation program can probably pull off, then you could download a FPGA simulator. Likewise there are fully decapped chip specs out there in the world, relevant as of that
Many people find emulating a chip8 a useful thing http://devernay.free.fr/hacks/chip8/C8TECH10.HTM . it is not necessarily a game but the end result will allow you to play several games as a result of working through the logic of a chip.
Any truly modern stuff is probably handled by modules being designed, and probably a lot of help from evolutionary computation if various talks I have seen are anything to go by.
Another approach you may enjoy is building a disassembler for an unknown machine
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