The young Reds, who defeated Hangzhou Greentown 5-1 on Friday and will take on Wigan Athletic and Bangor City before resuming their Premier League 2 campaign on January 9, came from behind to earn another victory at the Deva Stadium.
A Harry Wilson penalty and Cameron Brannagan's fine curler did the damage for Mike Garrity and Tim Jenkins' team, cancelling out Tomi Adeloye's header.
After their recent first-team involvement, Trent Alexander-Arnold, Ovie Ejaria and Ben Woodburn returned to the fold in Cheshire.
There were also starts for Joe Gomez and Sheyi Ojo as they stepped up their recovery from their respective injury lay-offs.