Rooney has played just twice in 2 1/2 months due to injury niggles - the latest being an ankle problem - and the fact he has dropped down the pecking order of strikers at United, behind Zlatan Ibrahimovic and Marcus Rashford.
The Argentina worldwide has resurrected his United career under Jose Mourinho this term, playing in 21 of the last 23 Premier League fixtures as a centre-back.
The Swedish top scorer was crocked at end of normal time as the Red Devils edged through in the Europa League quarter-final against Anderlecht.
It was a victory that came at a cost, with the 28-goal marksman landing awkwardly as his right led bent the other way while attempting to win a header. "I want to wait and try to be optimistic, but I am not".
Ibrahimovic was able to hobble off after the injury and Rojo told reporters he was "okay" while limping heavily through the post-match mixed zone.
"I don't want to go in that direction", the manager replied.
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"They have injuries, and even with a insane mentality, they can not play Sunday (at Burnley in the Premier League)".
"We are in trouble and, now, we lose Zlatan too but, in attack, we have options: Rooney is coming and let's see if Mata can also return before the end of the season".
The former Manchester United captain continued: "It was just as well Rashford had scored the victor, because you'd be waiting for him in the dressing room and I think it summed up their season to miss that many chances".
"But with a special spirit, you can (come back) sooner than expected".
"He has a good mentality, he is a fighter", the United boss said ahead of Sunday's trip to Burnley, where he confirmed Ander Herrera will start. "We had today an example of how hard it is and we now have a Spanish team, a French team and Ajax [in the semi-final draw] so we are not expecting anything easy". I watch more games of football than I eat bags of crisps.
"It was a hard game, a hard opponent, I am exhausted", said Mourinho, at the end of an encounter that sees United progress to the semi-final alongside Lyon, Ajax and Celta Vigo. "But we are in the draw and we still have the dream to win the competition".