If wiggling the clock harness does nothing, all optos on the clock are on switch Column 9, by the 8-Driver PCB which is mounted up in the backbox. (Upper right for production, lower left wall for prototype/sample games.)
If all optos are showing as closed, then the problem could be the ribbon cable that feeds the 80driver board, the transistor on the driver board, OR the column wire from the driver board down to the clock.