The trolley problem needs some significant rework if you're dealing with people who have superpowers. They'll just stop the train or switch the train over onto the one person and rescue them from the tracks. Or if they're fast enough or have diverse enough powers, rescue everyone. In the case of having superpowers, switching over to the one person and rescuing them is trivial, and should likely always be the choice if they can't stop the train.
As prisoner's dilemmas go, I've never found the trolley problem all that interesting. Too many unknown variables they never let you explore as it's not the 'point' of the thought experiment. It's better to refuse to answer for us normal people. You don't get much out of it and you have the added bonus of frustrating the questioner by refusing to play their game.