Reports had suggested Tan was reluctant to pay end-of-season bonuses in May next year but that a compromise had been reached.
Cardiff issued a statement in which chief executive Simon Lim said: "Our 2013-14 bonus discussions were concluded in September ahead of the Hull City game and, as a club, we are all focused on the Premier League season ahead.
"Our collective aim is to bring success to Cardiff City supporters."
When questioned on the situation after the 2-1 home defeat by Newcastle, Mackay said: "There has been a statement from the club on what you are talking about. I have not read it but there has been a statement put out in terms of the bonus situation. That has been sorted."
It has also been suggested Cardiff's players are no longer happy for Tan to be present in the dressing room on match-days.
While he did not state whether the Malaysian had been banned, Mackay confirmed he did not go into the changing rooms after the defeat to the Magpies, while Cardiff's players did not stop to speak to reporters following the game.
The Scot was less than happy at his side's sluggish first-half display and admitted it had proved very costly.
Loic Remy netted twice for the Magpies before Cardiff, inspired by substitute Jordon Mutch, pulled a goal back through Peter Odemwingie but could not find a leveller.
Mackay added: "We gave ourselves too much to do, if you give a good team time and space as we did in the first half you can be punished and we were.
"We gave ourselves a lot to do.
"We were what Cardiff City is all about in that second half, we were excellent and on another day could have had a point. But we cannot start like that against a good team with good players."