If using cottage cheese, blend 200g cottage cheese with 15g milk until completely smooth before measuring. If using Greek yogurt, measure straight from the container. Either way you want a thick, smooth consistency.
In the bowl of your stand mixer fitted with the dough hook, combine the bread flour, instant yeast, salt, and sugar and mix briefly on low to distribute. In a separate bowl whisk together the Greek yogurt or blended cottage cheese, warm water, and olive oil until smooth, then pour the wet ingredients into the flour.
Mix on low speed until a shaggy dough forms, about 2 minutes, then increase to medium speed and knead for 6 to 8 minutes until the dough is smooth, pulls away cleanly from the sides of the bowl, and passes a partial windowpane test. The dough should be tacky but not sticky. If it sticks to the bowl after 3 minutes, add flour one tablespoon at a time. If it looks too stiff, add water one tablespoon at a time.
Transfer the dough to a lightly oiled bowl, cover, and let bulk ferment at room temperature for 1 to 1.5 hours until visibly puffy and increased in size.
Line a 13x9 baking pan with parchment paper and spray generously with avocado oil.
Turn the dough out onto a lightly floured surface and divide into 24 pieces of about 31g each. Shape each piece into a tight ball by folding the edges underneath and rolling against the counter to build surface tension. Arrange the balls close together in the prepared pan in 6 rows of 4 so they will touch and merge as they proof.
Cover loosely and rest at room temperature for 15 minutes. This short rest allows the gluten to relax so the balls press out easily without springing back.
Preheat your oven to 450 degrees F while the dough rests.
Use oiled fingertips to press each ball down and out slightly to flatten the top. Add about half a teaspoon of marinara to each ball, then scatter shredded mozzarella generously over the entire pan. Add pepperoni pieces and any additional toppings.
Bake at 450 degrees F for 15 to 20 minutes until the cheese is deeply golden and bubbling, the pepperoni is caramelized, and the dough edges are dark golden brown. Start checking at 15 minutes. If you prefer a more well done result, go the full 20 minutes.
Let the pan rest for 5 minutes before pulling apart. The bites are very soft straight from the oven and will firm up slightly as they cool, making them much easier to pull cleanly.