He said it was desirable to vaccinate healthcare workers quickly but once the border workers were vaccinated New Zealand could afford "a bit of variability with how DHBs were doing", as some were ahead of target and some behind.
"I don't think that it is a huge concern that there is some variability, in a way you expect that."
As Covid-19 is not circulating in New Zealand like it is in other countries, while it is desirable to get through group two as fast as possible, there are no negative consequences of people not yet being vaccinated, Baker said.
"The consequences of having some DHBs that are ahead and some that are behind is not major, it's not endangering public health and people are not getting sick and dying as a result, which is the fundamental difference in New Zealand.
"I think in some ways it's an administrative issue that ideally you want to be shifting resources around the country to make sure that all DHBs are tracking reasonably well but in general there aren't negative consequences.
A HBDHB spokeswoman said the DHB "expects to catch-up on vaccine numbers in the coming weeks" as part of the group three rollout – everyone over 65 and those with relevant underlying conditions.
It has "pretty much completed" the rollout to group two.
"There were less people in this group [two] than initially thought, as some workforces used their own occupational health teams to vaccinate, which has meant the numbers were down on predictions."
She said the DHB does not have an issue with vaccine supply.
A campaign inviting people from group three will begin next week and details of the super clinics will be advised as part of this.
The DHB does not have data on individual people who have declined the vaccine as the rollout is ongoing.
Baker said the target to get the general population vaccinated this year is "very reasonable".