Hm, this is a really interesting idea.
The trouble is that it's tricky to apply a single decision theory to this problem, because by hypothesis, this gene actually changes which decision theory you use! If I'm a TDT agent, then this is good evidence I have the "TDT-agent gene," but in this problem I don't actually know whether the TDT-gene is the one-box gene or the two-box gene. If TDT leads to one-boxing, then it recommends two-boxing - but if it provably two-boxes it is the "two-box gene" and gets the bad outcome. This is to some extent an "evil decision problem." Currently I'd one-box, based on some notion of resolving these sorts of problems through more UDT-ish proof-based reasoning (though it has some problems). Or in TDT-language, I'd be 'controlling' whether the TDT-gene was the two-box gene by picking the output of TDT.
However, this problem becomes a lot easier if most people are not actually using any formal reasoning, but are just doing whatever seems like a good idea at the time. Like, the sort of reasoning that leads to people actually smoking. If I'm dropped into this genetic Newcomb's problem, or into the smoking lesion problem, and I learn that almost all people in the data set I've seen were either bad at decision theory or didn't know the results of the data, then those people no longer have quite the same evidential impact about my current situation, and I can just smoke / two-box. It's only when those people and myself are in symmetrical situations (similar information, use similar decision-making processes) that I have to "listen" to them.
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I wasn't assuming that I knew beforehand.
It's just that, if I have the one-boxing gene, it will compel me (in some manner not stated in the problem) to use a decision algorithm which will cause me to one-box, and similarly for the two-box gene.
Ah, okay. Well, the idea of my scenario is that you have no idea how all of this works. So, for example, the two-boxing gene could make you be 100% sure that you have or don't have the gene, so that two-boxing seems like the better decision. So, until you actually make a decision, you have no idea which gene you have. (Preliminary decisions, as in Eells tickle defense paper, are also irrelevant.) So, you have to make some kind of decision. The moment you one-box you can be pretty sure that you don't have the two-boxing gene since it did not manage to trick into two-boxing, which it usually does. So, why not just one-box and take the money? :-)