The incident happened before the Red Devils star scored the winning golal in a 1-0 victory over Villa, bringing back the smiles at Old Trafford.
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But as the hosts tried to break down Aston Villa, there were testy scenes at the Theatre of Dreams.
As Sancho tried to backheel to Tyrell Malacia on the overlap, he missed and it went out for a throw-in.
Fernandes could be spotted demanding the pass and barking out at the England international.
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The camera zoomed in on Sancho, who could be seen mouthing 'stop moaning' to the Portuguese star.
But the tension was alleviated when Fernandes opened the scoring moments later when he got on the end of a rebounded shot from Emi Martinez's save.
Marcus Rashford's weak shot was saved meekly by the Argentine as the ball was diverted towards Fernandes.
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And the 28-year-old's effort hit Tyrone Mings on its way to loft it over the hapless Martinez, flapping at air.
Fernandes enjoys his matches against Villa, scoring six in six appearances against them while his first-half strike was also the 100th of his career.
The attacking midfielder has been a key figure at Old Trafford throughout his career at the club.
But he has not hit his usual goalscoring form this season, with his goal against Villa being his seventh in the Premier League.
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That is just his 11th of the campaign in all competitions, though he has 14 assists.
And United were able to hold onto a win to solidify their position in the top four.