Your door optics aren't working correctly (Not "seeing"each other) or your bypass switch isn't closing the optical circuit of wiring.
With the door in an "OPEN" state, the machine will NEVER accept a coin.
You need to make sure your bypass switch is opening/closing the circuit
or
You need to completely get rid of the coin optics bypass you made and get a known good working set of door optics in order for your machine to accept a coin for credit.
This is also why your coin comparitor LED light doesn't come on when the door is closed and while the comparitor is hanging out thru some hole.
Also, the [Coins Played] display never goes out whenever you open/close the door.
Finally, your reels only spin when you power on the machine - not because you close the door.