Electronic – Why do we connect a resistor before a Zener diode

It's just the basic operating principle of a diode. An ideal diode would allow current to flow in one direction but block current flow in the other direction. This is based on how it's made, with a p-type region, an n-type region, and a depletion zone in between. Like the bottom diode in this picture:

When you apply a some voltage, in your case 0.9V then the p-type holes and the n-type electrons move into the depletion region because they are repelled by their respective battery terminal. With enough voltage (0.9V in your case) the free electrons in the depletion region get moving and current begins to flow like this:

Now in the ideal case if you were to reverse that battery the opposite will happen and you'll get no current flowing:

In the real world though you can only apply so much reverse voltage or push before you hit the breakdown voltage and current begins to flow freely in the reverse direction. Zener diodes take advantage of this fact and are constructed to breakdown at lower voltages such as your 3.3V.

Sources:
You can read more about how zeners are made here Or see the article I got all the pictures from here

I think you've got it mixed up. The body diode is a part of the structure of the MOSFET and does not help when switching an inductive load with a single MOSFET.

The zener in the symbol represents the avalanche rating of the MOSFET and is of use when switching an unclamped inductive load. You won't see it conduct unless you exceed the voltage rating \$V_{DS}\$ and get to \$V_{(BR)DSS}\$.

If you are actually getting +/-12V out of the pulse transformer, I don't see any obvious reason why that part would not work. Your negative swing out of the pulse transformer does have to be sufficiently large to turn the control MOSFET on, when loaded with both gate charges (-10V would be good).