I think most people would probably regard the objection as a nitpick (e.g. "OK, maybe the Indifference Principle isn't actually sufficient to support a tight formal argument, and you need to add in some other assumption, but the informal version if the argument is just pretty clearly right"), feel the objection has been successfully answered (e.g. find the response in the Simulation Argument FAQ more compelling than I do), or just haven't completely noticed the potential issue.
I think it's still totally reasonable for the paper to have passed peer review. ...
Okay, and thank you very much. But how do we know that if the universe timeline were run over and over again that it would be positive in value? Why not think that the future's value "in expectation" is neutral or very negative? Everyone seems to assume that the future will be good! Why?