About 100 people voluntarily marched out of the protest camp near Cannon Ball ahead of Wednesday's 2 p.m. CT (3 p.m. ET) deadline. The protesters chanted, waved flags and played drums as they left.
A handful of tents were set ablaze Wednesday morning. Tribal member Kaooplus Enimkla Thunder and Lightning said that some of the tents were frozen into the ground and had to be burned to be removed.
On Tuesday, nearly all the yurts were gone at the camp. Some tepees were stripped to the poles and the landscape was a muddy mess, with heaps of trash in some areas.
Many protesters have left, but a few who refused to budge said they don't believe the fight is over.
"I'm not going anywhere. I carry a knife with me all the time. But I am handing that over so that I have no weapons on me. I will stay and pray, even if they come to remove us," Valerie Armstrong, 36, of Sherman, Texas, said Tuesday.
Instead of leaving, Armstrong was busy building a tiny wooden house.
'A deep sadness'
Oceti Sakowin was the main camp closest to where the controversial pipeline will go underneath the Missouri River. At the peak of protests, the camp's population climbed to as many as 10,000 people. A couple hundred remained Tuesday as heavy equipment hauled away materials. Some campers also helped to clean up.
"I have no fear. ... I am living in the purest form I can," Eric Wallace-Senft told CNN affiliate KFYR-TV in Bismarck. "If they are people who want to harm me, then that's on them."
Another woman seemed more circumspect.
"There's obviously despair," Ellie Davis told the station. "There is like a deep sadness. ... This was beautiful what was built here."
North Dakota officials have strongly encouraged the remaining protesters to leave. Officials are offering buses to transport protesters to a transition center in Bismark, where they can receive medical evaluations, clean clothes, a hotel stay and bus fare home.
"Our goal is that everyone who wants to vacate the camps prior to 2 p.m. tomorrow has every resource available to do so," Levi Bachmeier, a policy adviser to Burgum, said Tuesday.
The North Dakota National Guard said $8.7 million had been spent on responding to the protests since August.
A graceful exit
Morton County Sheriff's Office spokeswoman Maxine Herr told CNN: "Women, children, elderly and any other protesters that want to take the opportunity to leave the camp can do so at that time."
She added: "We are seeking to take the moral high ground and help them gracefully exit."
The Standing Rock Sioux Tribe has said many times that the fight belongs in the court system and repeatedly has asked protesters to leave for safety and environmental reasons.
"We got an eviction notice from the Standing Rock Sioux Tribe," said Winona Kasto, who has cooked for thousands of people inside a large Army green mess tent. "I felt sad. It's like they gave up. Standing Rock gave up on our prayers and what we stand for here."
Kasto, a Native American from South Dakota, and her family packed up from the Oceti Sakowin camp. But Kasto said she would move to another camp inside the reservation.
'Keeping out all the evil'
Some protesters seemed to be bracing for the worst.
Dean Dedman, a member of the Dene Nation, had both hands wrapped around a post hole digger trying to gouge out a hole in the frozen ground. Several other young men joined him, digging holes in a line across the tallest hill inside the Oceti Sakowin camp.
"We are building our fortress of solitude," Dedman said.
He said the barrier they were building was to keep out sheriff's deputies as well as the Bureau of Indian Affairs.
"We are keeping out all the evil. If you want to talk about it in a spiritual way, it's keeping out all the negativity," Dedman said.
Pipeline is moving forward
The $3.7 billion pipeline is slated to stretch through four states -- from North Dakota into South Dakota, winding through Iowa and ending in southern Illinois. It is expected to move 470,000 barrels of crude oil a day across the Midwest. The project is completed except for the contested portion under North Dakota's Lake Oahe, half a mile upstream from the Standing Rock Sioux Tribe's reservation.
Tribe members are concerned the once-stalled project would affect their drinking water supply and place downstream communities at risk of contamination from potential oil spills.
Soon after, the corps granted the easement. The move was enthusiastically greeted two weeks ago by Energy Transfer Partners, the pipeline's developer. The company has said it's ready to proceed.
But the Standing Rock Sioux Tribe and its allies claimed then that the easement shouldn't have been granted without the issuance of an expected environmental impact statement.
The tribe said it plans to argue that the impact statement process was wrongfully terminated.
Burgum's order to evacuate isn't the first mandate to leave the camp.
At the time, the Army Corps of Engineers also said activists who refused to leave could face arrest. Officials later backtracked, saying they had no plans to remove forcibly those who stayed.
Earlier this month, the corps also ordered people to leave to prevent injuries and significant environmental damage in the event of flooding.
CNN's Sara Sidner reported and wrote from Cannon Ball, North Dakota, and Darran Simon wrote from Atlanta. CNN's Eric Levenson and Sara Weisfeldt contributed to this report.
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