HM Revenue & Customs brought the petition over £166,000 in unpaid taxes.
Northampton Borough Council meanwhile, in a bid to give more time to takeover talks with former Oxford United chairman Kelvin Thomas, have brought an administration petition against the club which will be heard on 27 November.
An official statement on the Cobblers club website read: "The club's role is currently to provide assistance where necessary to the ongoing process and to ensure that through this period the club continues to operate as normal.
"We understand this is a difficult situation for supporters and we would like to thank all supporters for their continued patience and support."