The Albanian takes his tally to seven goals in his first five games for Victory since completing his move from Brisbane Roar earlier this year.
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Archie Thompson netted himself a brace in the emphatic 5-2 win over their close rivals.
Thompson scored Victory's first after conceding a 13th-minute City goal, courtesy of Rob Wielaert's header from a set piece.
City took an assured lead into half time, but Berisha came firing out of the blocks, seconds after the restart, to level the score up in the 46th minute.
Thompson completed his brace with three minutes left after rounding City's goalkeeper Andrew Redmayne and tapping the ball into an empty net.
Victory, who are still undefeated, go top of the table while City stay in seventh.