From 2001 to 2007, the Flyers were a USA Hockey-sanctioned Tier III Junior B team.

Before the 2011–12 season, the WSHL and all its team members, including the Flyers, became AAU-sanctioned and dropped its USA Hockey sanctioning, the first Junior A hockey league to make that transition.

At the end of the 2019–20 regular season, the Flyers' home rink was closed due to the COVID-19 pandemic, the Ice Station Valencia, which was also owned by the Flyers' owner Roger Perez.

The closure was made permanent due to the financial losses incurred by the shutdown,[5] forcing the franchise to cease operations indefinitely.

[6] The Flyers have had a number of alumni move on to NCAA Division III, and higher levels of junior ice hockey, and professional ice hockey.