Even as a workforce professional after my teaching days (officially, anyway) were done, I kept the mantra of "there are no stupid questions" because I didn't want to discourage people from speaking their mind and asking for clarity if they were confused about something. It's kind of funny that there is now even an unofficial "holiday" of sorts, Ask a Stupid Question Day, which has mysterious origins but most sources agree that teachers started the movement to encourage their students to keep asking questions, no matter how dumb it may be perceived. You probably know the feeling well, as certain peers or mentors who may lack tact or awareness might make you feel ridiculed or embarrassed for asking an innocent question that, to them as more experienced or expert than you, may take for granted as gospel.
If the Ig Nobel Prizes are any indicator, even formal science is built off of absurdity. Much of the knowledge that we take for granted now started with someone wondering what that is or why it does that. And before we can get to the point of asking a "smart" question, we might first have to ask many "stupid" questions to get the ball rolling. Sometimes, those "stupid" questions can help you figure out a different approach to solving a scientific problem. Maybe a "stupid" question also inspires you to ask more, better questions that aren't so stupid after all.
One example that I thought of is the historic discovery of penicillin, which probably would have happened eventually if Sir Alexander Fleming had just said, "Well, this experiment is ruined," and thrown those moldy plates away. Many scientists probably would have just considered the experiment a failure and went on with something else, but on that fateful day, Fleming decided to ask what was going on with the lack of bacteria growth where the mold had spread, an act that most people probably would have considered to be stupid. The simple act of asking, "What's going on here?" led to a key weapon against bacterial infection that saved potentially billions, both in the battlefield and in the regular doctor offices around the world. Alas now we have bacterial antibiotic resistance problems, but that's a story for another day with another set of stupid questions to help us through it.
The next time you run into an obstacle, whether it is from an inflexible thesis committee or a review board, just consider that perhaps your instinct in asking those initial "stupid" questions was correct. Your intrigue is part of the fuel that drives innovation and discovery, no matter if it is trying to make an actual Iron Spider suit or wondering what would happen if you actually nuke a city. It's good to get out of your comfort zone and try something new, even if it started with something everyone else thought was stupid. After all, if the detractors had their way, we'd still think that the sun revolved around the Earth, and that would actually be pretty stupid.
Not only should you not be afraid to ask those questions, you should encourage others to ask more questions as well. If nothing else, you'll get a great conversation and some science jokes out of it!