McDonald and Byrne have both dropped out of contention at Molineux recently, with Jackett preferring other options.
The future is the pair is now in doubt ahead of the summer transfer window, but the 54-year-old boss insists that he has not written them off.
"It’s nothing intended," Jackett said. "It’s just more about the players who are playing, and my preference for those players.
"I haven’t seen any manager be able to do it with just 11 players, and you have to leave somebody out.
"A run with the other players is something I’m doing at the moment.
"For Kevin and Nathan I’m open-minded, if they battle back and get into the side then credit to them. And that’s football life.
"That’s what you have to do – come through that and battle back.”
McDonald has recently been linked with a move to Rangers in the Express and Star, as he has reportedly been training with the under-21 side.
The central midfielder started this term as one of his side’s key players, but he has dropped out of favour after the emergence of both George Saville and Jack Price.
Byrne, meanwhile, has had a difficult first season at Wolves after moving from Swindon Town last summer.
The right-sided player has shown glimpses of promise, but he has failed to nail down a place in Jackett’s first-team.
Byrne has made just 10 starts for Wolves in the Championship this term, and he appears to be behind both James Henry and Jed Wallace in the selection order.