I have two suggestions, as follows: FIRST, something in the drive train (motor to driving axles) or in the running gear (drivers and rods) is binding. Before removing the boiler, check the running gear to see if any rods are binding. Another possiblity is that a driving wheel may be loose on the axle, or it is not be properly "quartered." Drivers on one side should be 90 degrees ahead of or behind the drivers on the other side. If the rods on the engineer's side are down at the bottom, the rods on the fireman's side should be in the front middle position ("engineer's lead"). Now and then the rods on the fireman's side are leading those on the engineer's side ("fireman's lead"). If so, they would be in the REAR middle position, toward the cab. "Lead" in this case refers to the position of the rods when a locomotive is moving forward. The rods and drivers on one side are 90 degrees ahead of (or behind) the rods on the other side. Check rods and drivers on both sides ofr both engines. See whether there is any binding at the cross heads or where the rods enter the cylinder and steam chest.
If the running gear moves smoothly, remove the boiler and cab CAREFULLY. Turn the flywheel by hand, as D500 posted.
If everything turns smoothly, my SECOND suggestion is that the old Williams reverse unit isn't fully compatible with the Big Boy and/or with the transformer. It may be that the Big Boy is drawing too much current. I'll recommend two Websites. Some QSIndustries DCRU (DC Reverse Units) and sound systems are available at www.the-scaled-tin-rail.com. Go there and look around. Send an email and ask for help identifying the problem. A Dallee reverse unit and sound system may work, too. That Website is www.dallee.com
The Train Doctor (Luke in Port Clinton, PA) knows a thing or two about all this. I hope he will see this topic and reply.