Stevenage had dominated this derby contest and looked set for three vital points before Craig McAllister pounced with just three minutes remaining to give the Cards a share of the spoils.
The game went the way of the home side in the first half and it was Woking keeper Shwan Jalal who was kept busiest.
Stevenage's impressive new signing Adam Miller fired a free-kick which Jalal did well to save, while the Woking keeper was also first to the ball on 12 minutes when Jefferson Louis was free on goal.
Further chances fell to Darryn Stamp and Jon Nurse as Stevenage dictated play in the first half. Indeed Woking's only chances on goal came with a free header from Neil Smith and a shot through a pack of players by Ian Selley which keeper Alan Julian saved with ease.
It was a similar story after the break as Boro enjoyed the bulk of possession and came close with efforts from Louis, Nurse and Boyd before they finally went ahead on 63 minutes.
Justin Gregory was the provider as he capped good work down the left with a cross which Stamp headed powerfully home.
The goal looked to be enough to see Stevenage home, but they were left rueing Woking's late strike which provided another blow to their play-off aspirations.