Pressure is mounting for an inquiry into the decision.
Asked if it seemed a bit murky, Prime Minister John Key said "it feels a bit like that". He said he was willing to take Mr Jones at his word, but believed he still had questions to answer.
"The law allows a minister to say yes or no. That isn't the issue. The issue is why he said yes when the officials told him to say no," said Mr Key.
Mr Shearer yesterday said he would stand down Mr Jones if the police or the Auditor-General investigated him.
The Office of the Auditor-General said it had not yet received any request for an investigation into the issue. It can mount its own investigation if it considers it to be in the public interest.
Mr Jones said he was not concerned by Prime Minister John Key's criticism.
"I can understand Prime Minister Key wanting to see someone like myself stood down. It's the politics of utu. We have a crack at John Banks, they have a crack at Shane Jones."
He was relaxed about the trial and would make a more detailed explanation after its conclusion.