Preheat the oven to 500 degrees F for at least 30 minutes, with a pizza stone or overturned baking sheet inside.
In a medium bowl, whisk the water, yeast, and sugar. Let it sit five minutes, or until bubbly. Add the flour and salt, and mix until a dough forms. Knead gently, adding more flour as needed, to form a soft dough. Cover and let rest 15 minutes.
While the dough is resting, make the cheese sauce by melting the butter in a small pot over medium heat. Whisk in the flour to form a paste, and cook 2-3 minutes, until golden. Slowly add the milk, whisking frequently, and cook until bubbling and thickened. Whisk in the salt, pepper, cheddar cheese, and hot sauce. Taste and adjust seasonings as needed.
When ready to assemble the pizza, sprinkle a piece of parchment paper with the cornmeal. Gently deflate the pizza dough and stretch it into a large circle, about 14 inches in diameter, on the parchment sheet. In a small bowl, whisk the warm water and baking soda. Brush the baking soda mixture around the outer edge of the pizza crust, then sprinkle with the pretzel salt.
Spread the cheese sauce over the crust, leaving a ¾ inch margin around the edges. Sprinkle the mozzarella cheese evenly over the pizza, then arrange the pepperoni on top. Transfer the pizza to the preheated oven using a pizza peel or cutting board.
Bake 10 minutes, or until the cheese is golden and bubbly. Let cool 5-10 minutes before slicing and serving.