Thomas, 22, had only just returned to training after taking a month-long break from the club following allegations from a woman that Thomas wanted to “beat” her.
It was also alleged Thomas told a woman “your time is coming”.
The fresh information on Wednesday threatens to embarrass the Kangaroos for welcoming Thomas back to the club last month despite the cloud which has hung over his career.
The club is investigating the timing of the latest allegations and whether they are linked to another incident.
The Roos did not reveal specific information about the latest allegations, but confirmed on Wednesday the club was looking into a matter involving the midfielder.
“North Melbourne is aware of media reports regarding Tarryn Thomas,” the club said in a statement.
“Thomas has been participating in a respect and responsibility education program that deals with accountability, remorse and behaviour change following allegations of inappropriate behaviour towards women.
“As has been communicated previously, North Melbourne and Thomas will co-operate fully in relation to any further allegation or investigation.
“Thomas will not attend training on Thursday while the club gathers more information.”
Thomas is due to front court on a single charge of threatening to distribute an intimate image of a woman.