These are first 5 that popped to mind though they are in no particular order. What did I miss? Suggestions welcome.
  1. The Rebel Within at Craftsman & Wolves
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    A soft cooked egg inside a savory bacon and chives muffin. Worth going to just to get one even though @gabimoskowitz thinks the interior design of the shop is sterile as an art gallery.
  2. The Morning Bun at Tartine
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    Flakey croissant dough rolled with cinnamon sugar and orange zest baked in a muffin tin until the sugar caramelizes. Go on the early side as they tend to sell out.
  3. The Honey Cake at 20th Century Cafe
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    Russian inspired desserts featuring 8 layers of sponge cake with honey infused buttercream. So good that @seantimberlake requested it for his birthday. And he doesn't really care for many desserts.
  4. The Kouign Amann at B. Patisserie
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    Yeasted puff pastry dough layered with sugar and baked until the center caramelizes and gets oozy good. As good as Dominique Ansel's DKA in NY (the gold standard of Kouign Amanns). You can find it around town if you don't want to schlep up to Divosadero, though her shop is really cute.
  5. Caramel de Sel donut from Dynamo Donuts
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    Salted caramel might be played out elsewhere but this one here is a classic. They don't always have it so get whatever donuts they do have, totally worth the calories because they're all pretty darn solid. While you're there swing by Humphry Slocombe a couple of blocks away for an ice cream scoop as well (see my list of best ice cream scoops in SF for details).