Wayne Rooney slid home a pass from Ryan Giggs to open the scoring after 22 minutes.
Berbatov opened his goal account when he took advantage of a defensive mix-up to score 10 minutes after half-time.
He then volleyed in Cristiano Ronaldo's cross for his second after 79 minutes.
Scholesy was left on crutches, while Rooney limped off in some discomfort just before the hour mark.
United suffered a blow after 16 minutes when Scholes was stretchered off with a knee injury following a challenge by Thomas Augustinussen.
A job well done by United - but at what costs in terms of injuries remained to be seen as the players prepared to fly back to Manchester.
If you'd like to hear the News Conference of Alex Ferguson, please Click Here.
Van der Sar, R Da Silva (Brown 66), Ferdinand, Vidic, Evra, Ronaldo, Scholes (Giggs 16), O'Shea, Nani, Berbatov, Rooney (Tevez 59).
Subs not used: Amos, Anderson, Park, Evans.
Goals: Rooney 22, Berbatov 55 & 79.
Booked: Rafael Da Silva.
Referee: Olegario Benquerenca (Portugal).
Man-of-the-Match: Wayne Rooney.
Source: BBC News.
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