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FMS reported a loss of $6.3m in the March year, compared with a loss of $2.6m in the previous year.
The company's auditors, Grant Thornton, said in the annual report that there was "material uncertainty" surrounding the company as going concern.
"We draw attention to the significant accounting policies within the consolidated financial statements, which indicates that the group incurred a net loss after tax of $6.3m during the financial year and incurred net cash outflow from operations for the financial year of $2.3m," Grant Thornton said.
"Further, the group is dependent on its ability to raise additional funding from equity or debt to be able to meet all obligations as they fall due," it said.
"The matter indicates that there is a material uncertainty that may cast significant doubt over the group's ability to continue as a going concern," it said.
The Court of Appeal yesterday released the injunction that Sealegs had previously won against Orion Marine that stopped Orion from making amphibious boats.
FMS said it was seeking leave to appeal to the Supreme Court and that it would make another announcement after taking legal advice.
The company's shares last traded on the NZX at 7.3c. The share price has fallen by 41 per cent over the last 12 months.