I have an email account with hundreds of folders, each has multiple subfolders. I need to change the user permission of all those folders/subfolders at once. Is there a way to do it?
If you are using Exchange on an in house server or a server that you have access to you could take a look at this article. It should be helpful in what you want to do.
If you are using Exchange on a hosted platform then you would need to check with your provider to see if they can give you access to their power shell.