Tries from Robin Copeland and Owen Williams secured a deserved 17-6 win with young fly half Rhys Patchell converting both scores after adding a first half penalty.
The victory saw the Blues start 2013 with their fourth away win of the season and Baber hailed the performance of his side.
“That win was right up there, these are the moments you work hard for, in fairness to everyone who is associated with Cardiff Blues, that’s exactly what we’ve been working for,” said the Blues backs coach.
“It’s nice to come to Musgrave Park to silence the crowd and come away with the victory.
“I think we showed a bit of character, it wasn’t a pretty game by any stretch and I think Munster were a little bit off their game as well but you’ve got to take your chances when you can and we spotted the weaknesses in their game and took our opportunities.”
The two sides were level at half time, Ronan O’Gara exchanging penalties with Patchell. But it was the Blues who started the second half with a bang. Williams crossed soon after the interval, Patchell adding the conversion before O’Gara narrowed the score to 10-6 almost straight from the restart.
But Copeland’s late score secured the win and Baber hopes the victory can be the start of better things for the Blues.
“You’ve got to build on momentum that you create, we’ve talked about that a lot as a group,” he added.
“You’ll get your hits again during the season, but it’s a great leap forward for this group of players.
“They’re not young players anymore, they’re here for the long-term future of Cardiff Blues.”