Josh Papalii, Sia Soliola and Joe Tapine were back at training on Thursday, but their fate lies in the hands of the ARL Commission.
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The ARLC will meet on Thursday to decide what to do about players who refuse to either have the flu injection or sign a waiver.
They're required to do so as part of the COVID-19 return-to-play protocols.
The Canberra Raiders star trio refused to sign an unmodified NRL waiver in regards to a flu shot have the support of their teammates.
They were told not to attend training on Wednesday, but were back on the track Thursday and can continue to train until the ARLC has made up their minds.
"They disagreed with signing the waiver as it currently stood," Raiders football manager Matt Ford said.
"We wrote to the NRL last night to seek permission for them to train in the interim while a decision's being made in the background.
"The NRL have told us it's been passed to the Commission to make a decision around this issue.
"They granted us permission to train them until a decision is made."
The trio kept their teammates informed of their plans, which meant it wasn't a shock when they were all absent for day one post the NRL's coronavirus shutdown.
They reportedly crossed out a line in the waiver before signing it on Tuesday, believed to be the same line Gold Coast Titans forward Bryce Cartwright refused to agree to earlier this week.
The line stipulates players are aware they are at greater risk of contracting influenza if they do not receive a flu vaccination.
The NRL is considering banning players involved in anti-vaccination protests this season, as it seeks to ensure all players have received a flu shot and attempts to get the league started again on May 28.
Prime Minister Scott Morrison has also weighed in on the issue, saying the NRL should implement a "no jab, no play"-style policy that would ensure players are suspended from competing.
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An NRL spokesperson said players refusing to receive the vaccination will be dealt with on a case-by-case basis.
While Raiders winger Michael Oldfield has had vaccinations all his life, he didn't feel at a greater risk if the trio weren't vaccinated.
The 29-year-old also supported their stance and backed them to play even if they didn't get the flu shot.
"It's a tough one man. I've grown up and got the jabs as anyone does," Oldfield said.
"Obviously for whatever reason they don't. I believe that's their choice. If that's their choice I support them.
"At the end of the day I don't feel at more risk because of them and there has to be some sort of way the NRL and whatever players are involved in this mutually come to an agreement without withholding their freedom of doing what they want."
Raiders half Sam Williams hoped it wouldn't get to the point where players were banned from playing if they didn't get an injection.
He revealed the three players had kept them informed via their WhatsApp group - so it wasn't a shock when they turned up Wednesday morning and they weren't there.
Williams said he hadn't done enough research to offer too much of an opinion into whether they should be required to get the flu injection.
"The boys were really up front with us. They let us know they were waiting on a few things to be cleared before they came in," he said.
"It wasn't a case of us showing up at training and not having them about. They let us know and wanted to tell us about their position on things.
"It wasn't a massive shock when we came in, but it's just something we're working through at the moment.
"Hopefully it doesn't come to [them being banned] and I'm confident we'll be able to work something out before the competition starts.
"I'm sure once it settles down they'll give some clear reasons why. At the moment it's their decision.
"Individually we can only go forward and make our own calls on what we know. I've had my flu shot and I've got no doubt they've got their reasons why they haven't."
with AAP.