How to put burned iso files inside folders

It may not be bootable if you put the files into a folder, you`d have to try it.

But what is wrong with the way Rufus organizes the files, this is how it should look, and no one`s ever had an issue with it.

Not actually sure what your main objective is, but you can add anything you want to the usb stick after you`ve created the installer, and windows will always put everything in alphabetical order, like it has always done.

Is it not better to have a bootable USB Stick that works than one that looks "Tidy" because as already has been said altering the file layout may stop the stick from booting?

Get two usb sticks; one with your boot files and the other for your boss? Or, is your boss always needing to usb-boot a computer? From experience, if a particular usb-boot creation utility does not have a "choose your desired directory structure" click box, or entry-box -- do not attempt to "adjust" the boot files, do not attempt to force the boot files into a single folder, else there will be no boot, or, maybe a "boot" but no operations beyond that.

How tech savvy is your boss? You should be able Hide the messy structure using the hidden switch - suggest you leave the setup.exe file visible to stop the boss from saying the USB is empty.

I did this many years ago for a client that had two inquisitive children who were regularly messing things up (old 9.x windows so no security) - set all the important folders and files to hidden - What they couldn't see they did not play with

Barman, your idea is a good one! However, too many computers now have explorer-type utilities that show everything, hidden or not. I have no idea what the boss is using to explore and do his stuff.