After a complaint for a private crime has been filed in court, what is the effect of pardon by the offended party?

The pardon by the offended party will not have any effect on the prosecution of the offense.  Once a complaint has been filed in court, jurisdiction over the offense will be acquired and will continue to be exercised by the court until termination of the case.

Pardon must be effected before the filing of complaint to enjoin prosecution.