Regarding point 2.
See attached switch matrix below. I've filled in the cabinet switches in red. The blue circled switches are the ones you mention aren't responding in the switch test. Most of those not working are on the signal marked ST1 (Strobe 1). Can you confirm if the Spinner, Tilt and Slam switches are working? This signal is essentially derived from pin 3 (PA1 signal) of U10 PIA on the MPU board.
Regarding point 3 and 4.
Ok, so those lamps aren't on due to a short on the playfield.
Regarding point 5.
LDB U1 pin 3 being 1V is a problem. This is causing those spinner lamps to come on all the time. Infact the spinner 3000 lamp should also be on. Can you confirm if this lamp is blown?
However this doesn't really explain why other lamps aren't coming on so there's also another issue.
This Lamp Driver Board (LDB) U1 pin3 signal is essentially derived from pin 3 (PA1 signal) of U10 PIA on the MPU board.
Notice something in common here?
Now you've swapped the PIA in U10 with U11 and the symptoms didn't change. Note, this PA1 signal is also used for the displays and they're working, but it's wired a touch differently, so lets put that aside for the moment.
So something hanging off the PA1 signal coming from the U10 PIA is causing an issue.
1. Confirm if the spinner 3000 lamp is blown.
2. Confirm if the Spinner, Tilt and Slam switches are working or not.
4. Are any switches shown as always on in the switch test?
5. Measure the PA0, PA1, PA2 and PA3 signal voltages directly on the U10 PIA chip of the MPU board, that's pins 2, 3, 4, 5 respectively. We're interested in how the PA1 signal on pin 3 compares to the other PA* signals). It should generally be 2.0 - 2.5V in attract mode.
6. Do these same measurements again, however this time disconnect all three J1, J2 and J3 connectors off the MPU board. Wait till after the 7th LED flash on the MPU board so you know it's reached attract mode. This is to see what the PA1 signal is reading after having isolated the Lamps and Switches bus connected to it off the MPU board.
SpeakEasy-SwitchMatrix1.jpg