But although the cost of building a terminal at Clifford Bay was estimated at $200 million a year ago when it was suggested a public private partnership might be formed to build it, Mr Brownlee said estimates now put the price tag at $422 million.
A group of officials and private sector experts would continue working on the business case for the new port and report back to the Government by April.
KiwiRail chief executive Jim Quinn said a decision on Clifford Bay would help his company plan the future shape of its fleet and the way it structured its business to manage expected growth in freight.
"The important thing from Interislander's point of view is that a decision is made sooner rather than later so that we can plan for the future and that if that decision is to go ahead with the new terminal, that Interislander, as a cornerstone customer, is involved in the functional design and commercial negotiations from an early stage."
Mr Quinn said KiwiRail was unlikely to be the port's owner or builder.
Labour's transport spokesman, Phil Twyford, backed the decision to continue work towards the terminal.
"On the face of it you'd think this would have a pretty impressive cost-to-benefit ratio.
"When you compare to the huge amounts of money being spent on projects of much lower value in terms of the Roads of National Significance, Clifford Bay deserves a serious look."