No, an MVV-application cannot be rejected because of this reason. It is important to consider what happens before the deportation takes place. If the partner has been arrested in connection to a crime, then this will have consequences for an MVV-application. Some punishable activities seem innocent and can be dismissed with a fine. However, a punishable activity can be criminal in nature. In that case, paying a fine can be fatal for a future MVV-application. The same problem applies in the case of a conviction for a criminal activity. This will make it impossible to apply for an MVV for at least five years.
If the partner has been detained in a ‘vreemdelingenbewaring’ (temporary custody pending removal), this will not have consequences in a future MVV-application.