The controversy came in the second half when Arrows captain Ayanda Jiyane appeared to handle Langelihle Phili's cross in the box, with his arm extended away from his body.
Referee Michael Mosemeng allowed play to continue, much to Hunt's frustration. Minutes later, Angelo Van Rooi scored the match-winning goal for Arrows.
When asked if he received an explanation for the decision, Hunt replied wryly: "I can't answer that question, sorry. What do you want me to say? It's embarrassing - very embarrassing."
He emphasised the broader impact of such decisions on clubs and players.
"If the referee can say sorry - not to me - but I don't think they are that sorry. Are they? These decisions affect livelihoods, don't they?" Hunt said via Sportswire.
He called for the implementation of VAR in South Africa, noting repeated controversial calls in recent weeks and citing a red card to Thabo Moloisane that he felt was wrongly awarded.
Hunt joins fellow PSL coaches Manqoba Mgqithi of Abafana Be'Sthende and Miguel Cardoso of Mamelodi Sundowns in urging the league to adopt VAR to improve accountability.
With the cup disappointment behind them, Hunt now shifts focus to the Betway Premiership, where Stellenbosch face his former club, Kaizer Chiefs, at FNB Stadium on Tuesday.
Stellenbosch coach Gavin Hunt has lauded the impact of substitute Chumani Butsaka for his performance in the 2-1 come-from-behind victory over Kaizer Chiefs on Tuesday.
Stellenbosch came from a goal down to score a late winner and beat Kaizer Chiefs 2-1 in their Betway Premiership encounter at the FNB Stadium on Tuesday.
The draw for the quarter-finals of the Nedbank Cup was completed on Monday evening, with former champions TS Galaxy paired with Jacksa Spears.
Miguel Cardoso has offered a detailed explanation for Mamelodi Sundowns' unexpected 2-0 defeat to TS Galaxy in the Nedbank Cup Last 16 at Solomon Mahlangu Stadium on Saturday.
