Right. The more subtle problem with the capacitor solution then would be that there is nothing guaranteeing that the current going through one of the capacitor branches would return through the other, so the charging pulses could go through the IC/to the output in unintended ways as was mentioned before.
And if are using the center tap connected to one of the capacitor branches, you will be guaranteed no current in that branch as both ends are at DC potentials. So you will be guaranteed that the charging pulses will return through unintended paths, sadly.
(also these capacitors would discharge through the MC1466 if the output voltage every abruptly changes, such as when a short or a battery is connected to the output)
One option could be to generate an extra +110V supply using a doubler, and using it in conjunction with the -55V supply to feed two current sources, respectively sourcing current to the cathode of your shunt regulator and sinking current from the anode. The balance of the currents needs to be chosen so nothing bad happens inside MC1466. By selecting the sink current a little higher than the source current the internal zener between pins 7 and 9 would establish the correct working condition, generating the required floating supplies of roughly +11V and -7V.
But then startup/shutdown might provide surprises, with incorrect operation if the source current ever goes higher than the sink current, so maybe a separate transformer for the control circuitry is the easiest way after all.