Things like crumpled aluminum foil, a metal fork, or random bits of decorative metal in a dish could cause electrical arcing because charge can build up on the "edges" (e.g. the tines of a fork).
Of course, it's more convenient to use something like glass because we just don't have to give it a second thought (aside from the whole exploding glass problem). And for that, it's reasonable to simply avoid putting any metal in a microwave.
One can find articles that seem to imply the opposite.
> A few of Mr. Myhrvold’s microwave recipes — an eggplant Parmesan, which purports to turn the vegetable creamy instead of rubbery, and a steamed chocolate sponge cake — echoed ones I had seen before. (Mark Bittman has written in The New York Times about using the microwave to make several dishes, and “Eleven Madison Park: The Cookbook” includes a recipe for microwaved pistachio spongecake.)
https://www.nytimes.com/2013/01/09/dining/microwave-cooking-...
I'm sure some chefs reject microwaves to make a point. I would contend its a minority though, I would also contend that it's to allow the Mr Rouxs of the world to justify inflated prices, rather than any inherent problem with the machine.
Hell, even some of the sponge cake on the menu at el Bulli was microwaved.