A goal in either half meant that the points were shared at the JobServe Community Stadium.
Colchester United lined up with a couple of first team players in the starting elevn with both Jake Turner and Luke Hannant named to get their game time and match fitness to where it needs to be.
Also in the line up were familiar names, such as Junior Tchamadeu and Gene Kennedy, who have featured in recent first team matches for Hayden Mullins.
The U's would kick off what would turn out to be a fairly uneventful forst half of football at the JobServe Community Stadium, despite Dave Huzzey's side heading into the break a goal up.
Both sides wrestled to gain control of the ball in the middle of the park making for a tight game under the lights, but there were some half chances for either team.
Trialist found himself mobbed by a combination of the away 'keeper and defence under the bar after he tried to attack Kennedy's ball back across goal from a corner, leaving him unable to get clean contact on the ball before Wednesday were able to clear.
Jake Turner was forced into a low save after Tchamadeu had made an error at the back to gift the ball to Bonnington for the visitors. But it was nothing the Newcastle United loanee couldn't handle, with Turner letting the U's right-back know his feelings.
But Tchamadeu did turn provider for the Colchester United goal seven minutes before the break. A measured cross was delivered to the back post for Trialist to attack, and head the ball beyond Hall in goal for the visitors, to give the U's a slender advantage at half time.
Trialist was withdrawn at half time with Chay Cooper coming on in his place.
Colchester United made a slow start to the second half, with Sheffield Wednesday equalising within twenty seconds of the restart. Will Trueman drove at the home defence, taking aim with his deflected effort ricocheting off a U's leg over Turner and into the back of the net.
The visitors looked like they were the team on top in the second half, creating chances in front of the U's goal. They were unlucky not to take the lead in the game with sixty-eight minutes on the clock when Josh Dawodu took aim from just outside the area. His effort had Turner scrambling across goal, with the ball flicking off the outside of the post and out for a goal kick.
The U's were back on the front foot for the final fifteen, and looking to win the match. Samson Tovide took a tumble after pressure from behind, but had his penalty claims waved away by the referee when a shot was perhaps the better option.
Luke Hannant then created a goldne opportunity for his side on the counter. Arriving at the back post for Donell Thomas' cross, Hannant cut the ball back across goal with a clever first touch, but Tovide and Cooper had already made their runs and were unable to connect.
Chay Cooper saw his effort saved well by Jack Hall low to his left after a driving run, holding on to the effort with Tovide closing him down quickly.
Cooper had another effort save with less than five minutes remaining, with his free kick palmed away at the far post by Hall.
But the U's were unable to make the breakthrough in the closing stages, having to settle for a point against Sheffield Wednesday, now taking their points tally to four from three games.
Colchester United U23 starting XI: Turner, Tchamadeu, Kazeem, Cornish, Trialist, Beadle, Hannant, Kennedy, Tovide, Thomas, Trialist.
Subs: Cooper, Hutchinson, Akolbire, Marshall Miranda, Collins.
Sheffield Wednesday U23 starting XI: Hall, Dawodu, Aguas, Hughes, Agbontohoma, Thompson, Hagan, Trueman, Bonnington, Waldock, Glover.
Subs: Charles, Farmer, Zottos, Davidson, Asfha.