"My sinuses are all completely clogged up and every time I get a little bit run down they turn into infections," the 34-year-old Briton said after finishing in a tie for third place at the DP World Tour Championship on Sunday.
"Hopefully the surgery will fix it. It's a pretty quick and easy operation."
Donald said he was affected by the problem over the last two rounds in Dubai, the final event of the European Tour season.
The former world number one wanted to make it clear, however, that his disappointing one-under-par final round of 71 should not be blamed on his physical ailments.
"I don't like to make excuses but the last couple of days I've had the sinus issue again," added Donald. "I felt a little bit flat and unfortunately I couldn't get things going on Sunday."
The Chicago-based Englishman went into the last 18 holes sharing the lead with Ryder Cup team mate Rory McIlroy.
Donald went a remarkable 102 holes without carding a bogey in the Dubai tournament, this year and in 2011, but a dropped stroke at the third on Sunday ended that sequence and put him on the back foot for the rest of the round.
He finished five strokes adrift of world number one and tournament winner McIlroy, who birdied each of the closing five holes to shoot a six-under 66.