Local bhoys Matty Hughes and John Marsden were on target for Stevie Frail’s side as they continued their build up to the new season.
Celtic were twice in front in the match only to lose out to a last minner winner but Frail took plenty from the exercise.
He said: “It was disapointing to lose the match but we aquitted ourselves well and the Everton coaches acknowldged that.
“Everton have one of the best Academy structures in England and there was little if anything between the two sides.
“We had a few players away with the reserve side at Lincoln and others who are out injured.
“Everton was a step up in standard from the game last week against Wigan and that’s good for the players.
“We kept possession well and tested them, it was a great exercise for us and everything is going well in our preparations for the start of the competitive action.”