The 21-year-old was stretchered off in the semi-final clash against Arsenal at the Emirates Stadium.
The Yellow Submarines subsequently confirmed that he suffered muscular damage to the quadriceps in his left leg and he will be out for some weeks, but he has been pictured in training with his teammates on Wednesday.
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Chukwueze was impressive in the first leg win over Arsenal in Spain assisting Manu Tigueros for the opening goal.
He was named in the Europa League team of the week as a reward for his scintillating performance against the Gunners.
Chukwueze has made 12 appearances for Villarreal in the Europa League scoring one goal and recording five assists for the Yellow Submarines.
Manchester United are the overwhelming favourites to win the trophy, but Unai Emery is a proven winner in the Europa League having led Sevilla to three consecutive triumph in the competition.