Going into next Saturday's plum FA Cup tie at Chelsea, Paul Ince's side have now taken 19 points from their last 21 available to resurrect a season that had seemed certain to end in relegation.
Third-placed Lincoln, looking to extend a four-game winning sequence, were baffled by the first penalty award in the sixth minute when Shane Nicholson, under pressure from Matty McNeil, was judged to have handled inches inside the box.
Macc's Mister Cool stood up to slot home the penalty low and to the left of the keeper.
However, the Imps were soon back on level terms when Jeff Hughes neatly controlled a swirling Ryan Amoo cross before turning to thump a bullet drive into the far corner.
Both sides then created a flurry of chances with Matthew Tipton shooting inches wide for Macclesfield before skipper David Morley warmed the fingers of Alan Marriott with a powerful drive.
Lincoln's top-scorer Jamie Forrester should have added to his 14 goals for the season with a close-range header at the far post in the 29th minute and twice after the break he broke the offside trap only to shoot straight at Tommy Lee who stood up well to the task.
Lee then made another fine save to deny Amoo before Macc youngster Izak Reid saw a bullet shot deflected off the line.
The Cheshire side took the lead in the 65th minute when Adie Moses was judged to have hauled down the imposing McNeil and McIntyre produced another pinpoint penalty for his fifth successful spot-kick of the season.
Macc then had the better chances to extend their lead with Alan Navarro powering a drive from the edge of the box inches past the post and Jamie Tolley forcing a competent save from Marriott.
But at the death Lincoln might have stolen an equaliser with Forrester once again only able to pick out the keeper from 15 yards.