A common issue on Gottlieb "Scan" type bonus collect is the Run out switch on the Bonus unit. This is the leaf switch that rides on the outer edge of the bakelite cam. They sometimes don't stay "Closed" during the entire cycle of the bonus scanning. I have found this sometimes to be the condition of the center bearing that the shaft goes through of the cam. If it can wiggle around a lot, this will cause issues as it moves in a circle. Here is another discussion from a while back:
https://pinside.com/pinball/forum/topic/hot-shot-bonus-reset-issues