If I went negative on my self employed business, and filed my 1099-k (which says that i owe), do I have to file my 1099-k even if i had no profit?

Your self employed income gets filed with all your other personal income sources (like say a W-2). The loss could potentially offset your wages so you'll want to file. If you have no other income, then filing with a loss could create a carry-forward which can offset future years. 

Thanks for the advice, I actually got a great return.