Is the mother of my children allowed to take them out of state without my permission? do i need to file paperwork?

Without more details, the only answer possible is "maybe."  Do you mean for a trip, or permanent relocation?  If the former, look at what the decree says (if it is silent, presumably there are no limitations).  If you mean relocation -- moving with the kids to stay somewhere else -- state law prohibits doing so without the written consent of the other parent, or a court order allowing it.  See the explanation of the relocation cases at http://willicklawgroup.com/child-custody-and-visitation/ and consider consulting with a family law specialist soon.