If you're going to leave those wires like they are, insulate them somehow. A bit of tape temporary, just so they can't short.
Those switches by the score motor might have been to pulse the replay unit for multiple games per coin through the extra chute. You need to see if there is a card stapled on the cabinet side by the score motor. If there is, it will tell you what the various score motor switches do. If there isn't a card, are there staples which once attached one? You need a schematic anyway. I'm not sure on a game that old where the score motor switch description is. I know it's on the cabinet side on my 1962 game.