Capitalizing on this early notoriety, founder Gene Muller took Flying Fish into brick and mortar, constructing the first microbrewery in South Jersey.

[citation needed] After opening in 1996, Flying Fish hit financial trouble due to a craft brewing bubble that popped.

[2] Flying Fish was able to gain more funding so it could buy a larger volume of packaging, making their pricing more competitive in the market and was able to stay open.

[citation needed] Business grew, and Flying Fish began to produce a range of beers year-round, along with a variety of seasonal specialties.

In 2012, Flying Fish moved from Cherry Hill to its new facility in Somerdale, making it the largest brewery built in the state since prohibition.

[citation needed] On November 9, 2017, Flying Fish announced that Lou Romano, who began working in the beer business at age 16 and most recently at Oskar Blues Brewery, where he served as National Sales Manager since 2013, would replace Muller as the company's president.

[citation needed] In the summer of 2004, Flying Fish produced a blueberry flavored Abbey Dubbel available only in 1/6 kegs to recipients of the brewery's mailing list.