Here is a video compilation showing my issue. I thought this would be better than trying to explain it
So it appears the side of the amp that is making the top of the wave form is nice and strong and the part of the amp that is making the bottom of the waveform is weak. At 2:29 the waveform looks relatively clean but Vmax is 60V and Vmin is -40V so there is some serious asymmetry. Later, when you adjust the balance to resolve the asymmetry you get some nasty distortion on the lower part of the waveform.
It should be fairly easy to localize the problem with an O'scope by probing the circuit, as long as your probe is configured to, and can handle the voltage. If you don't have an appropriate probe you need to be very mindful about the voltages you are probing.
I may be as simple as a bad driver tube. You could bias the amp cold, swap the drivers, reset the bias, and see if the problem follows the tubes. If problem does not follow the tube, you need to pull the chassis and start trouble shooting.
I think checking the current balance in all the output tubes would be a good place to start. It's possible one side of the amp only has 2 of 3 output tubes operating. If the current in the output tubes is reasonably balanced, I would trace the signal through the amp from the output of the PI to the output of the drivers.
To determine the state of the output tubes, you can measure the voltage drop across the screen resistors and also the plate resistors. Of course the standard warning applies here...be very careful as you will be probing lethal voltages. If you are not competent and comfortable working with high voltage, take the amp to a technician. One of the first things you should do is take off rings and necklaces, and generally you should probe with only one hand. The idea is if you do get shocked, you don't want the electricity going from one hand to the other through your chest cavity, as that can stop your heart.