If the court orders refinancing within 90 days, the parties will return to court to report either that refinancing was secured, or the reasons why it was not. The involvement of the vehicle in the civil action will determine what happens next.
You should comply and refinance the vehicle. If you don't, then you will be in contempt of court and you can be fined. Also, if there are any monetary damages to the other party, you may be liable for them also. The best course is to do what the court ordered.
If the party who is Ordered to refinance a vehicle in a civil suit fails to do so within the proscribed time, then the opposing party can file a motion to have the party failing to refinance the vehicle in contempt of court. The Court may incarcerate the contempted party for failing to follow the order.