"Essentially the judgement says the rules of natural justice were not applied when the Board of Inquiry considered new evidence from the Regional Council and the Regional Investment Company which was not made available to the other parties," Mr Johnson said.
"We had no idea this was happening and it is galling that natural justice should be flouted in this way by public bodies. Back room deals which compromise the environment are just not acceptable".
Fish & Game's environmental manager Corina Jordan said the decision "has national implications for all local bodies".
"This is a good day for the environment. The decision shows regional councils have to deliver on environmental outcomes, such as improving water quality by ensuring rivers are healthy", Ms Jordan said.
Labour's conservation spokeswoman Ruth Dyson said the decision was important "as it as it will make sure our rivers are properly protected".
"It is clear that the High Court's decision to refer its findings back to the Board of Inquiry will mean that the all-important environmental safeguards on the project can be strengthened."