Are you sure that you need an advanced decision theory two handle the one-box/two-box problem, or the PD-with-mental-clone problem? You write that
a CDT agent assumes that X's decision is independent from the simultaneous decisions of the Ys- that is, X could decide one way or another and everyone else's decisions would stay the same.
Well, that's a common situation analyzed in game theory, but it's not essential to CDT. Consider playing a game of chess: your choice clearly affects the choice of your opponent. Or consider the decision of whether to punch a 6'5", 250 lb. muscle-man who has just insulted you -- your choice again has a strong influence on his choice of action. CDT is adequate for analyzing both of these situations.
It is true that in my two examples the other agent's choice is made after X's choice, rather than being simultaneous with his. But of what relevance is the stipulation of simultaneity? It's only relevance is that it leads one to assume that the other decisions are independent of X's decision! That is, the root of the difficulty is simply that you're analyzing the problem using an assumption that you know to be false!
It seems to me that you can analyze the one-box/two-box problem or the PD-with-a-mental-clone problem perfectly well using CDT; you just have to use the right causal graph. The causal graph needs an arc from your decision to Omega's prediction for the first problem, and an arc from your decision to the clone's decision in the second problem. Then you do the usual maximization of expected utility.
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If your goal is to figure out what to have for breakfast, not much relevance at all.
If your goal is to program an automated decision-making system to figure out what breakfast supplies to make available to the population of the West Coast of the U.S., perhaps quite a lot.
If your goal is to program an automated decision-making system to figure out how to optimize all available resources for the maximum benefit of humanity, perhaps even more.
There are lots of groups represented on LW, with different perceived needs. Some are primarily interested in self-help threads, others primarily interested in academic decision-theory threads, and many others. Easiest is to ignore threads that don't interest you.
This example has nothing like the character of the one-box/two-box problem or the PD-with-mental-clone problem described in the article. Why should it require an "advanced" decision theory? Because people's consumption will respond to the supplies made available? But standard game theory can handle that.
It's not that I'm not interested; it's that I'm puzzled as to what possible use these "advanced" decision theories can ever have to anyone.