The judge dismissed allegations the match had been fixed, citing a lack of evidence, and cleared over 40 people accused of sporting corruption.
Paris Saint-Germain midfielder Ander Herrera, Mexican coach Javier Aguirre, and former Atletico Madrid captain Gabi Fernandez, all at Zaragoza at the time, were among the defendants in a trial.
The match on the final day of the season was won 2-1 by Zaragoza over Levante which spared the club from relegation to the second division.
But it triggered an investigation by Spain's anti-corruption prosecutors' office over suspect payments to playing staff and coaches.
However at the end of the trial, only ex-Zaragoza president Agapito Iglesias and his former financial director Javier Porquera were convicted of fraud.
The case was reopened following an appeal by state prosecutors, the Spanish League and Deportivo La Coruna, the club relegated as a result of Zaragoza's win.