Ferguson criticised the Portuguese for trying to dribble past a player rather than wind the clock down with United leading 3-2 in injury time.
Rumours before the game were suggesting that Nani, increasingly out of favour at Old Trafford, was close to the exit door.
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Since Guus Hiddink arrived at the helm, Chelsea have improved considerably after a tricky start to the campaign.
Newcastle United are staring down the barrel of relegation to the Championship for the second time in the past eight years.