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1
Pick over the beans to remove any stones or debris, and place them in a large pot. Add the water, bay leaf and onion, cover the pot, and bring it to a boil. Let boil for 2 minutes, then turn off the heat and let the beans stand, undrained, for an hour. Discard the onion and bay leaf. (Note: the beans should be fairly tender at this point, though older beans may need more soaking time.)
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2
Put on a pair of latex gloves. (No, seriously. Trust me on this.) Using kitchen shears, snip off the stems of the dried peppers and shake out most of the seeds (unless you like a fierier chili, in which case leave in as many as you like). Toast the peppers in a dry skillet until they are fragrant and beginning to soften, then place them in a bowl and cover them with the 2 cups of boiling water. Let soak until they are very soft.
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3
Toast the coriander and cumin seeds in the same dry skillet until fragrant. Transfer to a mortar and pestle, add the coarse salt, and grind. Place the softened peppers with their soaking liquid in a blender, adding the ground coriander/cumin mixture, the cinnamon, the chipotle powder, the cocoa powder, and the roasted bell pepper. Puree until smooth and set aside.
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4
Cut the short ribs into bite-sized chunks, season well with salt, and set aside. Place a small amount of oil in a deep, heavy-bottomed pot and warm until shimmering. Brown the short rib pieces in batches, removing them to a plate or platter as you finish browning.
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5
Add the chopped onion and a pinch of salt and cook until translucent. Add the garlic and marjoram or Mexican oregano and cook until fragrant. Clear a space in the bottom of the pot, add the tomato paste, and cook for a minute until it gets a little caramelized before stirring it through the onion mixture.
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6
Return the short ribs to the pot with any juices that have accumulated on the plate or platter, then add the chile puree, the beans with their cooking liquid, and the fire-roasted tomatoes. Add the stout and stir to incorporate. Cover and simmer over low heat for at least 3-4 hours, until the beans and beef are fully tender (this is actually best if you cook it low and slow ahead of time, even one or two days in advance of when you're actually going to serve it).
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7
Add the crushed tortilla chips about an hour before serving, stirring them in so they break down and thicken the chili (and add a lovely toasty corn flavor). Taste for salt and add a bit more if necessary, stir in the fresh lime juice off the heat, then serve with garnishes and plenty of cold beer.
