Niko Kovac's men ultimately slumped to a 0-0 draw away to RB Leipzig, meaning they head into the final weekend of the season just two points ahead of second-placed Borussia Dortmund, which beat Fortuna Dusseldorf 3-2.
Bayern needed to match Dortmund's result and would have done so had Goretzka's 51st-minute strike stood, but it was chalked off after a VAR review adjudged Robert Lewandowski to be marginally offside.
Hoeness was fuming at the decision, with his understanding of VAR technology being that it should only be used in clear-cut cases, rather than those that are marginal.
"I saw a great performance from our team," he said. "We were clearly the better team with many, many chances to score.
"The so-called offside is the joke of the year, because that was not a clear mistake. The video evidence is there to correct clear mistakes.
"It was the same height, millimetres are no advantage. But you're always negative anyway, we're not used to it any other way."
Hoeness was similarly prickly when asked about reported Bayern target Timo Werner playing for Leipzig, with a reporter asking the former West Germany international if he was paying particular attention to the 23-year-old.
"Today I've looked at the Bayern players and not the whites [Leipzig players]," he added. "We're playing for the championship and you [the media] are always looking for other avenues.
"If a dog bites a steward soon, that's more important to you than the football game. We have to get used to that.
"We are in the decisive phase of the championship. It's all about the championship, and everything else we think about afterwards."