Don't worry, that's not an uncomfortable question. UDT and MDT are quite different. UDT is a first-order decision theory. MDT is a way of extending decision theories - so that you take into account uncertainty about which decision theory to use. (So, one can have meta causal decision theory, meta evidential decision theory, and (probably, thought I haven't worked through it) meta updateless decision theory.)
UDT, as I understand it (and note I'm not at all fluent in UDT or TDT) always one-boxes; whereas if you take decision-theoretic uncertainty into account you should sometimes one-box and sometimes two-box, depending on the relative value of the contents of the two boxes. Also, UDT gets what most decision-theorists consider the wrong answer in the smoking lesion case, whereas the account I defend, meta causal decision theory, doesn't (or, at least, doesn't, depending on one's credences in first-order decision theories).
To illustrate, consider the case:
High-Stakes Predictor II (HSP-II) Box C is opaque; Box D, transparent. If the Predictor predicts that you choose Box C only, then he puts one wish into Box C, and also a stick of gum. With that wish, you save the lives of 1 million terminally ill children. If he predicts that you choose both Box C and Box D, then he puts nothing into Box C. Box D — transparent to you — contains an identical wish, also with the power to save the lives of 1 million children, so if one had both wishes one would save 2 million children in total. However, Box D contains no gum. One has two options only: choose Box C only, or both Box C and Box D.
In this case, intuitively, should you one box, or two box? My view is clear: that if someone one-boxes in the above case, they made the wrong decision. And it seems to me that this is best explained with appeal to decision-theoretic uncertainty.
Other questions: Bostrom's parliamentary model is different. Between EDT and CDT, the intertheoretic comparisons of value are easy, so there's no need to use the parliamentary analogy - one can just straightforwardly take an expectation over decision theories.
Pascal's Mugging (aka the "Fanaticism" worry). This is a general issue for attempts to take normative uncertainty into account in one's decision-making, and not something I discuss in my paper. But if you're concerned about Pascal's mugging and, say, think that a bounded Decision Theory is the best way to respond to the problem - then at the meta level you should also have a bounded decision theory (and at the meta meta level, and so on).
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Thanks for mentioning this - I discuss Nozick's view in my paper, so I'm going to edit my comment to mention this. A few differences:
As crazy88 says, Nozick doesn't think that the issue is a normative uncertainty issue - his proposal is another first-order decision theory, like CDT and EDT. I argue against that account in my paper. Second, and more importantly, Nozick just says "hey, our intuitions in Newcomb-cases are stakes-sensitive" and moves on. He doesn't argue, as I do, that we can explain the problematic cases in the literature by appeal to decision-theoretic uncertainty. Nor does he use decision-theoretic uncertainty to respond to arguments in favour of EDT. Nor does he respond to regress worries, and so on.