In-form Noffke had match figures of 8-57 while Test squad member Mitchell Johnson had a quiet game ahead of Thursday's Gabba Test, taking 1-39 and 1-47.
The Australian state side, chasing a target of 142 runs from 43 overs, slumped to 78 for six before Clinton Perren (62 not out) and Ashley Noffke (21 not out) shared in a seventh-wicket stand of 64 to steer the home team to victory.
But for a time it looked as though Sri Lanka were on the road to a morale-boosting win ahead of next Thursday's opening Test here against Australia with pace duo Lasith Malinga and Farveez Maharoof in full cry.
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"We spoke amongst ourselves and are very happy with the bowlers. Ready for the Test match," skipper Mahela Jaywardene said.
"I'm disappointed with the batting, a few shot selections. A lot of people weren't 100 percent about the shots.
"There are no excuses, we probably could have been much more positive with our shot selection.
"It will be a different kettle of fish come Thursday.
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