The 25-year-old left back was absolutely brilliant throughout the game especially when bombing forward but a lapse in concentration proved to be decisive and costly.
The England worldwide made headlines recently after scoring the crucial equaliser in his side's 2-2 draw with rivals Arsenal at Old Trafford - his first goal of the season.
Midfielder Aaron Ramsey (ankle) will be monitored before Saturday's Premier League clash with Huddersfield, which Mesut Ozil is expected to miss out due to a back problem.
Koscielny has taken part in regular training sessions with Arsenal's first-team and Emery is hoping to play the France worldwide against Qarabag next week. When are we thinking he will start playing with us? Just three days after thrashing North London rivals Tottenham Hotspur 4-2 at the Emirates, Arsenal came into the game at Old Trafford brimming with confidence.
United on the other hand have gone backwards under Mourinho and find themselves 20 points adrift of Manchester City. This draw is not the best, but not the worst.
"We couldn't control for the full 90 minutes".
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Ozil has not played in almost a month after being benched against Bournemouth and then missing the last three games with a recurrence of back spasms.
"The second half, I think our players worked to win". Usually United create a lot of chances here, and I don't think we conceded a lot of chances.
'Every player is like me, when it is a derby we need the other players to give us his experience and character, ' Emery said following the win.
"Our challenge is to come to teams like United, I think today our response was positive", he said. "We are thinking the Europa League against Qarabag is a possibility [next Thursday]".
"He's working with us every day in training and playing in the under-23s with good feeling".