Hi Chris,
Had to go to work; but, I'm back and even with no response to above #4. in above Reply #8; I would at the very least try this very simple test prior to beginning massive disassembly of anything:
1. Jack up both rear axles, (L & R, w/ tires still on), and place L & R axles on sturdy jack stands after providing blocks in fronts of both L & R front tires.
2. Remove key after making sure ignition switch is OFF; and open hood and remove all (4) spark plugs.
3. Ask someone to get inside car, (maybe with a watch or clock with a second hand), and inform them when you give the signal, to hit the starter button for approximately (7) seconds, then remove his/her foot off of the starter switch, and wait for your next command.
5. You lay down on the outside perimeter of the car, (preferably with a mechanic's stethoscope, or an approximately one inch square wood stick where one end is placed on your ear and the other end can be placed on different metal parts of the drive train) to test and listen for knocks that may originate from different parts of the drive train, or other areas.
6. Not that adamant, single Model A Forum past experiences of Model A owners are not helpful; but, after possibly 80+ years of Model A maintenance on this car, and sometimes with later difficult to find Model A parts a few years back, there could always be several causes for strange knocks that we on this Forum cannot hear.
7. After rudimentary and very quick, simple testing, you may at the very least find a clue and maybe avoid lots of wasted time, money, and efforts in chasing a Model A unicorn ...... all headaches are not brain tumors ..... some have been known to even be caused by hangovers.