@ZEUS233, can you be more specific?
@ZEUS233, you might want little specific about a question like this by telling exactly what the command is. Is it all commands, or just some that are not functioning the way you desire? For example, I would use the command
ls and see that not all my files are there, like the .env file, and then I would type in
ls -a to see other files like .env and .glitch-assets which you can move.