The home side led 20-0 just before half-time, thanks to the boot of Ruan Pienaar and tries from Jared Payne and Darren Cave.
Munster rallied with tries from Ivan Dineen, Dave Kilcoyne and James Coughlan to close the gap to 23-19, but further efforts from Pienaar got Ulster over the line.
Turning to today's action; Connacht host Leinster at the Sportsground in another inter-pro clash.
Kick-off in Galway is at a quarter-past seven and the visitors will be looking to avenge their heavy defeat their last season.
Andrew Browne will win his 100th cap for Connacht this evening.
