Army spokesman Colonel Tamer al-Rifai said in a statement the 13 "were abducted by an armed criminal group in the Ajdabiya region".
The statement said their liberation had been made possible by "coordination with the general command of the Libyan army", without elaborating.
The Libyan National Army is loyal to Marshal Khalifa Haftar, the strongman in eastern Libya and a rival of Fayez al-Sarraj, leader of the Tripoli-based and internationally recognised national unity government.
Libya has been mired in political and security problems since the 2011 revolution that overthrew longtime dictator Moamer Kadhafi, with rival militias jockeying for power.
In the wake of the atrocity, Egypt staged air raids against IS positions in retaliation and thousands of poor migrant Egyptian workers in Libya returned home.
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