would love to see how AI can automate the construction of the next high energy particle collider

You're halfway there, but the only impediment isn't on the side of the researchers. Many of these topics they're trying to solve involve human subject research. Even with tireless embodied researchers who work around the clock and don't require breaks, you can't make the thing you're studying happen faster. The biggest reason we use poor proxy measures for things like longevity and mortality research is the simple impracticality of finding two groups of randomly selected people, ensuring you can control their entire lives for 60 years, the only difference between them is one variable, and see who lives longer. Putting aside the ethics, even if you could find willing subjects and actually control their entire lives to that extent, it would still take 60 years to gather the data you need. It doesn't make any difference whether robots or humans are running the program.

One of my favorite books from the past few decades is The Extravagant Universe, written by one of the astronomers who helped discover dark energy and develop the current most-accepted model of cosmology. I love this book because of the emphasis on physical process in astronomy. Part of the reason it took decades to study this problem is they need to collect data from supernovae. Those only happen so often in places we're looking. You can't automate alignment of the heavens. It happens when it happens.

> transcendence

> immanence

somebody has been studying Christian theology!

You can use simulators. However the problem is that if you're for example running material science experiments, those simulations will consume a lot of compute and take weeks, so spamming different approaches in the way an agent tends to work might not work quite as well.