In July, the EU General Court threw out the Commissions ruling that Ireland must collect 13 billion euro in unpaid taxes from the tech giant.
In a statement the European Commission has said the General Court made a number of errors of law, and making sure companies pay their fair share of tax remains a top priority.
The tech giant employs nearly 5,000 people at a number of sites across Cork
Business Correspondent Gavin McLoughlin says the General Courts judgement was resounding, but an appeal was always going to be likely: