I would go through that system 1 link step by step for each board starting with the power supply. If you are getting erratic behavior and display issues I'd first verify all voltages and then verify all the interconnect plugs are good. Unfortunately the ground is tied to all the boards through the plug cables, if you get a bad connection you will get a difference in ground potential between the boards which will do all sorts of weird things. It looks like the large cap (4700/25) may have been replaced on the power supply but it wouldn't hurt to put a larger one in its place and that is covered in that link. You can also pull the driver board out and then check all the drive transistors with a digital multi meter to make sure they are good, if you get a shorted transistor it can cause a coil to lock in when it is triggered causing fuses to blow. Double check all socketed chips on your board, the only ic that is socketed to my knowlege is the program chip in the top left corner labled (B) any others may have been replaced during a prior repair and by the looks of your cpu I would say is been worked on in the past. Step by step is the best thing you can do on these old boards and by all means do NOT leave the game on with locked coils, just pull the fuse on that coil till you work out the issue. Maybe a couple of the more knowlegable guys will chime in once you start getting measurements. I'm good with Williams boards but I am still a little green on these Gottlieb boards myself.
Edit: Pay close attention to A1-J6 on the CPU, it appears the battery leaked at one time and the same happened on my board and the acid ruined the metal pins in that plug. That plug goes to switches on the front door so if you can't initiate a credit or start a game that may be why. A1-J5 can also get damaged on the left hand side from acid so check that one as well.