the PK was a good call, imo, as Garcia didn't seem to even try playing the ball. Maxi P has himself to blame for the RC and JJ should be abit more gracious in defeat - Benfica did put out a very good performance but they hurt themselves with the Maxi P RC and the missed numerous chances over both legs.
The ref may not have been great - too many YC I think - but, from what I saw (missed about 25min of the game here and there), don't think he made any bad calls that directly affected the outcome of the tie.