The Fijian international struck in each half to settle the 'Distance Derby' in Wellington's favour, with Ruben Zadkovich replying for Glory.
The result saw Wellington go two points clear at the summit, ahead of Melbourne Victory and Glory who both have 37 points.
The task of winning in the west was made all the harder for the Phoenix by the loss during the week of 12-goal gun Nathan Burns to a hip injury - but it didn't show.
The visitor set the tone early on as it took the game to Glory, which is now winless in eight matches, with Krishna at the heart of matters.
First he fired a drive into the side-netting after being set up by Joel Griffiths, then he was given a sight of goal after a slip by Glory defender Scott Jamieson but keeper Danny Vukovic was up to the task to spare the defender's blushes.
At the othere end, dead ball specialist Nebojsa Marinkovic swung over several teasing set-piece deliveries without a teammate managing to get on the end of any of them.
Wellington took the lead in bizarre circumstances in the 23rd minute when defender Josh Risdon attempted to clear Louis Fenton's low cross, only for the ball to rebound off a charging Krishna and into an empty net for his eighth goal of the season.
But Glory hit back in spectacular style five minutes later as midfieder Zadkovich - who was sent off soon after coming on as a substitute the last time to two sides met - thrashed an unstoppatble 25-metre drive past Glen Moss in what must be a contender for goal of the season.
The game was an arm-wrestle in the second half with chances few and far between as both defences got on top.
Glory substitute Jamie Maclaren looked to make an instant impact after coming off the bench, curling an angled shot just wide moments after coming on in the 63rd minute.
Moments after Moss had denied Andy Keogh with a point-blank save, Wellington broke to take a 79th minute lead as Krisha wriggled his way into the box and held off two challenges before blasting a low left-footed drive past Vukovic at his near post.
Youngster Jason Hicks might have added a third for Phoenix in the 85th minute after being released by Krishna, but his shot flashed just centimetres wide.