Masters and Augusta National chairman Fred Ridley says Phil Mickelson was not "disinvited" from the first major of the year.
Six-time major winner Mickelson in February revealed he was taking a hiatus following the backlash to his comments promoting a Saudi Arabia-backed Super Golf League.
The 51-year-old American had suggested that although Saudi Arabia has "a horrible record on human rights", the threat of the potential breakaway competition could be used to "reshape how the PGA Tour operates".
Mickelson subsequently apologised for making "reckless" comments.
There will be no fourth Masters title for the San Diego native this week, as he is not in the field in Georgia.
Ridley on Wednesday denied that Mickelson's absence is because he is not welcome.
He said in a press conference: "I would like to say we did not disinvite Phil. Phil is a three-time Masters Champion and is invited in that category and many other categories; he's the defending PGA Champion.
"Phil reached out to me, I think it was in late February, early March, and let me know that he did not intend to play. That was by way of a text.
"And I thanked him for his courtesy in letting me know. I told him that we certainly appreciated that and, you know, told him that I was certainly willing to discuss that further with him if he'd like, and he thanked me, and we had a very cordial exchange."
While Ridley says it will be strange not to see Mickelson tee off on Thursday, he is naturally delighted that Tiger Woods' is set to make a sensational comeback.
"Well, certainly not anything we anticipated. I think in Phil's case, he made a personal decision, and I don't know anything beyond that," Jacobs said.
"I know that Phil has been a real fixture here at the Masters for many, many years. He's been a big part of our history. I certainly and we certainly wish him the best sort of working through the issues he's dealing with right now.
"As it relates to Tiger, it's just truly amazing. I don't even know how else to say it. I would have probably taken some pretty high odds a few weeks or a few months ago, even a few weeks ago, whether or not he would be here.
"But when you think about it, it really shouldn't surprise us. He is one of the most determined, dedicated athletes that I have ever seen in my life.
"I saw him out last Tuesday when he was out practising, was in great spirits and had Charlie [his son] with him. It was interesting yesterday in his press conference, he said the only really issue is walking; that his golf swing's fine. So who knows what might happen this week, but we are excited he's here."