Adelie Ireland, which took over The Bite Group last year, has now gone into administration.
The company based in the Lackaboy Industrial Estate makes sandwiches and snack foods for convenience stores and retail outlets.
Staff were  sent home after being informed of the news on Friday.
Administrators are examining the options for the future of the business.
About 80 jobs are at risk at a food manufacturer and distributor in Enniskillen.