Vidic is already banned for United's first-leg trip to the San Siro on Tuesday evening after seeing red in the Club World Cup final in Japan back in December.
But former Chelsea chief Mourinho says England striker Rooney should also be unavailable for the clash between the English and Italian champions following an incident in United's last European tie against Aalborg at Old Trafford.
Danish defender Kasper Risgard claimed that Rooney had stamped on him during the 2-2 Champions League draw on December 10.
However, UEFA reviewed the incident after it was missed by referee Laurent Duhamel but decided no action was required.
"Back in 2005, UEFA used TV evidence to suspend Michael Essien for a challenge he had made in the Champions League against Liverpool," Mourinho told the Sunday Telegraph.
"Against Aalborg, Rooney made a challenge that deserved punishment. But nothing happens. What is the difference between Michael Essien from Chelsea and Wayne Rooney from Manchester United? I don't think there is a difference.
"As for Vidic, surely it is simple. His elbowing of Liga de Quito's Claudio Bieler in front of such a large audience deserved a two-game suspension. So he should not be playing in either leg against Inter.
"The rules are written. It is the same thing as the rules saying it is 11 against 11. One team cannot play with 12. It is not possible to change the rules."
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