United took the lead 39 minutes into the game against Sir Alex Ferguson's son's League One side in front of over 13,000 fans at London Road when the host's right-back Russell Martin put through his own net.
Second half substitute Darron Gibson sealed the win for United when he netted on 69 minutes with a superb 30-yard left foot strike.
United: Kuszczak; R Da Silva, Brown, Ferdinand, Evra; Gray, Fletcher, O'Shea, Nani; Tevez, Campbell. Subs: Zieler, J Evans, Cleverley, F Da Silva, Cathcart, Martin, Rodrigo, Gibson.
United's next pre-season friendly is against Italian side Juventus at Old Trafford on Wednesday.