Not a big fan of throwing new boards in a pin without doing some basic troubleshooting.
With the MPU unplugged are the lamps off and do they light when you ground their wire tabs?
Next, check the new B&I MPU switch setting. Is is set correctly for the game?
Have you measured the voltage on the switched lamp bus? It should be 6.3v DC. If there is any AC present you will have problems.
What is the behavior if you use incandescent laps.
carefully inspect the Buss and make sure there is absolutely no cross between GI and switched lamps.