Balgalis said that about 30 buildings could be torn down.
"The majority of [the buildings] are sheds, garages, auxiliary buildings. There are just a few residential houses -- some four to six," he said.
"Initially it was planned that more than 2,000 properties will be affected, but now these are less than 1,000 private properties," he said.
Rail Baltica is a proposed high-speed line to link Helsinki with Berlin through the Baltic capitals by 2024.
The key goal of the project is to renew regional integration by re-joining the Baltic states with the European rail network.
The project will cost Latvia about 1.27 billion euro. It is co-funded by Connecting Europe Facility (CEF). The first part of the project acquired more than 80% in funding from the CEF.