Moyes was critical of the Reds' first-half performance at Old Trafford, but says his side should be pleased to qualify from a tough group.
He added: "We got to the top of the group which is what we wanted, and the win helps our form a little bit. We didn't play too well in the first half, especially in the first 30 minutes. I didn't think we were close enough to them (Donetsk), we gave them too many opportunities, and were fortunate not to go a goal down.
"I thought we started to get a little bit better before half-time and then we did better in the second half."
The Reds boss praised the contribution of goalscorer Jones after the game, and says the 21 year-old should challenge himself to find the net more often.
“I think he [Phil Jones] should score more goals," said Moyes. "He’s good in the air and he should challenge himself to take more chances. I see him as a centre-back, but he can also play as a defensive midfielder, as everyone here knows.
"With our shortage in midfield at the moment, we’re having to use him in there quite a bit, but we’ll try to bring him on. He’s a young player, we shouldn’t expect too much so soon, but he’s doing smashing and he’s one for the long term who will continue to improve.”