Playing in front of a Victory-dominated crowd of 50,871 at Etihad Stadium, Kevin Muscat's side took their chances in emphatic fashion, cementing their position as Melbourne's number one side.
Sydney FC or Adelaide United await the premiers following Saturday's second semi-final.
Whether it was the short break, the step up in class, or just the moment, Melbourne City were found lacking on the biggest stage of their young history.
Berisha's opening goal, his fifth against City at Etihad Stadium this season, came on 19 minutes.
Leigh Broxham's overlapping run was honoured by Barbarouses, with the right-back finding the unmarked Berisha inches from goal.
Without a City defender in sight, the Albanian glanced a header past former Victory gloveman Tando Velaphi.
John van 't Schip's side were fashioning more chances than Victory, but were undone on the half-hour mark when Barbarouses added a second goal.
And what a goal it was.
From Fahid Ben Khalfallah's cross, Barbarouses, stepped back, balanced and unleashed a technically perfect volley to live long in the memory, striking a waist-high ball sweetly from the penalty spot into the corner of the net.
This was Victory's night, confirmed as much within minutes of the restart.
With Williams already off, Mooy and Novillo joined them in the change rooms after the Frenchman fluffed a shot at the back post.
Still City pushed, Kennedy heading wide and Patrick Kisnorbo firing wide when alone in the box.
City's captain took a turn up front as they looked to find something but it was Victory that made the play via a club legend.
With Berisha heading a Gui Finkler corner against the upright, substitute Thompson latched onto a loose ball to tap home, securing their place in the decider.
- AAP
