In principle, it doesn't matter, because you can represent a countable list of programs as a single program that takes an extra parameter (but then you'll need to be more careful about the notion of "execution histories"), and more generally you can just include all possible programs in the list and express the level to which you care about the specific programs in the way mathematical intuition ranks their probability and the way utility function ranks their possible semantics.

On execution histories: note that a program is a nice finite inductive definition of how that program behaves, while it's unclear what an "execution history" is, since it's an infinite object and so it needs to be somehow finitely described. Also, if, as in the example above you have the world program taking parameters (e.g. a universal machine that takes a Goedel number of a world program as parameter), you'll have different executions depending on parameter. But if you see a program as a set of axioms for a logical theory defining the program's behavior, then execution histories can just be different sets of axioms defining program's behavior in a different way. These different sets of axioms could describe the same theories, or different theories, and can include specific facts about what happens during program execution on so and so parameters. Equivalence of such theories will depend on what you assume about the agent (i.e. if you add different assumptions about the agent to the theories, you get different theories, and so different equivalences), which is what mathematical intuition is trying to estimate.