Pat dry pork shoulder with paper towel. Rub pork shoulder evenly with 1 teaspoon salt, 1 teaspoon brown sugar, and smoked paprika. Pork shoulder can be covered and refrigerated for up to 48 hours before continuing with recipe.
Set oven rack to lower-middle position and preheat oven to 300 °F. Off heat, add pancetta and 1 tablespoon water to a large dutch oven. Cook pancetta over medium heat, stirring occasionally, until fat renders and pancetta is golden brown, about 5 minutes. Transfer pancetta to a small bowl, leaving fat in dutch oven. Store pancetta in refrigerator.
Add onion, carrot, celery, and ½ teaspoon salt to dutch oven over medium heat; cook, stirring frequently, until onion begins to soften, about 7 minutes. Add tomato paste, miso paste, and roasted garlic; cook, stirring constantly, until tomato paste turns brick red and sticks to bottom of the pan, about 3 minutes. If at any point ingredients begin to burn at bottom of the pan, lower heat to medium-low.
Add 1 cup red wine to dutch oven. Scrape bottom of pan with wooden spatula to incorporate browned layer. Add remaining wine, and bring to a simmer over medium heat, stirring occasionally. Reduce heat to medium-low; continue to simmer until liquid is slightly reduced and thickened, about 10 minutes. Add crushed tomato, remaining 1 tablespoon brown sugar, italian herbs, fresh thyme, and ½ teaspoon salt to dutch oven. Stir to combine, and return to a simmer over medium heat. Lay pork shoulder over tomato sauce. Cover dutch oven and transfer to oven for 1½ hours.
Remove dutch oven from the oven. Place sausage over pork shoulder. Cover dutch oven and return to oven for 30 minutes. Transfer sausage and pork shoulder to a large platter or cutting board. With a spoon, skim excess fat from top of tomato sauce. Remove thyme sprigs from sauce. Make sure to vent blender lid; cover lid with kitchen towel; and hold lid in place. In batches, transfer sauce to blender and blend until smooth. Return sauce to dutch oven, and bring to a simmer, stirring occasionally. Season to taste with salt and pepper.
As sauce reheats, shred pork shoulder into 2-inch chunks, discarding bone and any large pieces of fat. Slice sausage ¼-inch thick. Stir pork shoulder, sausage and pancetta into sauce. Allow meat to warm for 10 minutes. Serve with pasta and parmesan cheese, or your choice of starch or grain.