The four councillors - Rick Barker, Peter Beaven, Tom Belford and Rex Graham - complained the submission was sent to the board without their sign-off and have attempted to lodge their own submission.
Mr Graham said the four councillors would not comment because they believed the issues raised by staff in the letter should be addressed first by discussions among councillors and then directly with staff.
Mr Wilson said he would get councillors together this week for a private discussion on the issues raised in the letter.
"There are some issues that need sorting out. I do intend to get the team into a room and let's have a fairly frank discussion about some of these issues."
Mr Wilson said yesterday the blame for the concerns raised by staff rested with the four councillors.
"I share the frustration of the staff. We've got some damn good staff in that organisation and they're saying, 'enough is enough, whenever we come up with a report we get shot down by four councillors'.
"It's crazy stuff."
He said council staff had acted appropriately lodging the board of inquiry submission without seeking the approval of councillors.
"The staff have delegated authority. If we want to change that we're going to have to sit down and have a particular discussion about that, but in the meantime that's the policy, that's how it works and it [the actions of the four councillors] is amounting to almost political interference in a process."
He said a recent blog post by Mr Belford which used Dilbert cartoons and criticised the amount of money the council had spent investigating the Ruataniwha dam proposal was "a direct shot at staff".
"I don't know how else you could view it. We have obligations under the Local Government Act to be good employers and I don't know of any employers who ridicule their staff publicly."
Last month the council's deputy chair, Christine Scott, said she would take a code of conduct complaint against Mr Belford over comments he made in an earlier blog post, which also criticised council staff.
Mr Wilson said he had received a written complaint from Mrs Scott but had not yet followed it up.
Mr Belford could not be reached for comment last night.