A tense affair between two sides fighting to stay in The Championship, Wanderers started brightly, with Sammy Ameobi and Adam Le Fondre doing their best to create chances.
At the other end, full back Jack Hunt dragged a shot wide when through on goal.
Ameobi continued to threaten, seeing a free kick well saved by Joe Wildsmith,
Some neat footwork from Atdhe Nuhiu enabled the Kosovan striker to get a shot away, but Ben Alnwick was on hand to save the shot at his near post.
Wanderers had the best chance of the half nearly forty minutes in, when a strong run and cross from Ameobi on the right wing set up Will Buckley, but his header was somehow saved by Wildsmith.
Bolton may have been the better side in the opening forty-five minutes, but the score remained goalless at half time.
Five minutes into the second half, Buckley had another great chance to give Wanderers the lead, but his shot was hit straight at Wildsmith.
Wanderers continued to dominate, with Derik being denied a goal from a corner by some superb Wednesday defending.
Sammy Ameobi then saw a couple of chances well saved by Wildsmith. First, his speculative overhead kick was easily saved. The winger then tried his luck from distance, but that time Wildsmith was able to push the ball away from Le Fondre, who was ready to bury the rebound.
With just over ten minutes to go, Wednesday somehow found themselves in front in controversial fashion.
Lucas Joao’s pass found George Boyd, who buried the ball first time past Alnwick into the far corner.
However, the linesman had raised his flag, as Jordan Rhodes was stood in an offside position. Despite animated protests from the Bolton bench, the goal stood after a quick discussion between the linesman and referee Darren Bond.
In an effort to rescue a point, Phil Parkinson brought on Aaron Wilbraham and Zach Clough for Derik and Jon Flanagan.
Wilbraham was booed onto the pitch by a small section of the travelling Wanderers fans. I don’t care if you don’t like a player or don’t rate a player, you should never boo a player.
Thankfully, Wanderers were able to score the goal to make sure Wednesday didn’t claim all three points.
In the 93rd minute, Filipe Morais’ cross was headed home by Aaron Wilbraham.
Wilbraham’s goal ensured Bolton moved six points clear of the bottom three, with just nine games left in the season.
It’s a third successive draw on the road for Wanderers, points that could prove vital come May.
Bolton are back at The Macron next Saturday to take on promotion chasers Aston Villa, a game live on Sky.