This　paper　studies　autonomous　configuration　problem　of　time　synchronization　met　when　the　NTP　protocol　is　used　in　very　large-scale　networks.　NTP　autonomous　configuration　means　the　adaptive　refreshment　of　the　run-configuration　in　response　to　current　state　of　networks.　This　paper　takes　the　autonomous　configuration　as　a　class　of　self-organizing　process.　A　life-cycle　model　is　presented,　and　a　special　extended　protocol　for　NTP　is　designed.　With　this　protocol,　a　node　is　able　to　automatically　search,　choose　and　tune　its　running　parameters.　The　simulations　and　applications　show　that　this　method　has　more　advantages　over　others　and　it　is　valuable　for　NTP　improvement.