Question: does agents of shield reference endgame?
Answer: In short, Agents of S.H.I.E.L.D. doesn't reference Thanos' snap or the events of Avengers: Endgame at all. To add extra confusion for MCU fans, Agents of S.H.I.E.L.D. season 6 is set one year after season 5, which ended with the death of Phil Coulson in Tahiti.