For the second successive home game, Massimo Luongo won the Owls three points as his first half goal was enough to beat Stoke.
The Australian international mirrored his match-winning strike against Wigan to seal a victory that takes Wednesday into the coveted top six.
The Potters for their part struggled to make an impact in the final third and their recent revival was promptly ended at Hillsborough.
The Owls made a bright start and posed early problems for the visitors, who found it hard to move out of their own half.
While keeper Adam Federici was largely untroubled, there was no doubt that Wednesday had greater intensity.
And they were almost rewarded when a sweeping four-man move concluded with a last-ditch challenge by Thomas Edwards thwarting Kadeem Harris from close range.
Indeed, things were not going the way of a Stoke side forced into two changes before half time as both Peter Etebo and Cameron Carter-Vickers succumbed to injury.
And after Adam Reach tested Federici from distance, one of the substitutes – Liam Lindsey – was at the centre of Wednesday taking the lead on 43 minutes.
Lindsey misjudged a Steven Fletcher flick-on, allowing Luongo to pick his pocket and advance to slot across Federici into the bottom corner.
It was just the boost the Owls needed going into the second half attacking the Kop but they were dealt a blow when goalscorer Luongo was forced out of the action.
Stoke started to grow into the game and Badou Ndiaye fired a fierce shot that the agile Dominic Iorfa bravely blocked.
Moments later, on 64 minutes, it was Cameron Dawson’s turn to rescue Wednesday, diving low to superbly keep out a Lee Gregory header.
Play moved straight to the other end and this time it was Federici’s turn to impress, stretching high to divert a Harris hit over the crossbar.
Wednesday introduced Fernando Forestieri and Atdhe Nuhiu in the closing stages as Garry Monk’s men sought to see out the contest.
And despite Stoke rallying near the end, the Owls held firm, Luongo’s goal proved decisive and the impressive start to Monk’s S6 reign continues.
Wednesday: Dawson, Palmer, Iorfa, Börner, Fox, Reach, Hutchinson, Bannan, Luongo (Lee 54), Harris (Forestieri 74), Fletcher (Nuhiu 81)