Teachers: What to do with tardy student?

This student (F) has been very problematic from day one.

Last Friday, he was not in class and other students said he was going to be late. I never leave my students alone—specially when he is in class; but I really wanted to go to the restroom which is right across my classroom. I left my students working on an assignment. It took me 3 mins. tops. When I returned to my classroom everyone was very quiet doing their work. So, I walk in, lock my door and sit behind my desk.

A few minutes later, one student says: Doesn’t the room feel very quiet? I said: it certainly does. Why is that? she says, could it be because F is not here? I said: sadly, it seems that way.

All of a sudden, from the corner opposite from my desk jumps F with spread arms like an eagle pointing his finger at me yelling at the top of his lungs Gotcha!!!! In what? said I, when and how did you get in the classroom and where is your tardy pass?

He produced his tardy pass and said See? See? See what F? Said I, you are not complying with class rules when you sneak in and hide and wait for the “right moment” to make it known you are in the classroom.
More stuff was said but that was the gist of it.

Can you please throw in your two cents and give me your opinion on the situation and what I should do. How to proceed?
What should the consequences of his action be?

I’d appreciate all the comments…I really need help. I have a parent conference on Monday morning with F father.