Remove stems and seeds from dried chiles. Blend cooked chiles, tomatoes, oregano, cloves, cumin, allspice, vinegar, and ½-1 cup of reserved water until smooth.
Sauté onions, garlic, and thyme in the Dutch oven for 2-3 mins. Add chile paste, cinnamon, bay leaf, bouillon, and 4-5 cups of water. Cover and simmer. Season with salt and pepper.
Scoop 1.5 cups of broth into a bowl. Add cilantro and diced onion, set aside. Dip tortillas in remaining broth in Dutch oven, then cook in a skillet over medium-high heat.