The Bees ran promotion chasing Stockport County to the wire but left Edgeley Park empty handed following a late Hatters winner.
On a chilly evening in the North-West, there were chances for either side in the opening three minutes, as first Alex Reid fired an effort wide for the Hatters, before Courtney Baker-Richardson struck wide of goal for the Bees.
The hosts came within inches of taking the lead of five minutes, as Harry Cardwell's flicked headers struck the inside of Aymen Azaze's upright.
On nine minutes the hosts did take the lead, as Liam Hogan tapped home from three yards out after Azaze had made an incredible stop from a powerful header at point blank range.
The Bees responded well to falling behind and could have been level but Ben Hinchliffe in the Stockport goal, as he did well to hold Ephron Mason-Clark's powerful effort.
Paul Fairclough's side had another good chance to go level on 25 minutes, as Michael Petrasso found an amazing pass to Baker-Richardson, who couldn't quite get it under his spell when through on goal.
Baker-Richardson was at it again minutes later, as he headed Lee Vaughan's dangerous cross just over the crossbar. Meanwhile, County looked threatening as Alex Newby flashed an effort into the gloves of Azaze.
Stockport had new man Paddy Madden on the pitch after a first half substitution and he would have been immediately on the scoresheet, but for a brave block from Ben Richards-Everton.
Azaze made a big stop with five minutes left of the half, as Reid twisted in the area before unleashing a stinging effort which the 19-year-old was equal to.
The Bees started the second half brightly and almost equalised through Alex McQueen as he saw his powerful free-kick parried away by Hinchliffe.
The hosts should have doubled their lead through Madden as he headed wide with the goal gaping, after a free-flowing Stockport move.
But it would be the Bees who would level as McQueen brought down a ball in the box before calmly slotting under Hinchliffe.
Fairclough's side continued to threaten on the counter and could have led when Petrasso got to the byeline only to see his cutback hacked clear. Meanwhile, Azaze continued to be a rock as he stopped Newby's low effort.
It would be the promotion-chasing hosts who would take the lead with seven minutes left on the watch, as substitute Jack Stretton squeezed an effort home.
The Bees chucked everything at it but couldn't snatch what would have been a dramatic equaliser in the dying moments. However, they can take plenty of heart from another gutsy and determined performance.
Barnet: Azaze, McQueen, Petrasso, Faal (McBurnie), Richards-Everton, Baker-Richardson, Binnom-Williams, Mason-Clark, Vaughan, Daly (c).