The Imps, now without a win in four weeks, only had themselves to blame after poor finishing undermined their offensive pressure.
But for the efforts of Nikki Bull in the Shots goal, the home side could have been a goal down in the opening moments. Lee Frecklington deftly played in Lenell John-Lewis, before Bull bravely thwarted the danger.
Seconds later, Stefan Oakes' corner found John-Lewis this time Bull scrambled across his goal to divert the header from six yards.
Just under the quarter hour mark, Marvin Morgan missed a glorious opportunity, from a Chris Blackburn's cross, the striker took an extra touch allowing Janos Kavocs to block on the line.
Ben Harding missed a similar gilt-edged chance ten minutes later when Andy Sandell put the midfielder in on goal after good work from his own half.
On 34 minutes, Morgan forced anther good save from Rob Burch, after good approach work from John Grant. Burch misjudged Scott Davies' subsequent corner and Sandell bundled home his first goal for the club.
With five minutes left in the half, John-Lewis was rueing his luck again, as his header crashed off the bar from Oakes' corner.
Lincoln almost draw level at the start of the second half, Frecklington clean through and bearing down on goal was exquisitely disposed by Anthony Charles.
On the hour mark Aldershot killed off the contest, the lively Sandell flicked on to Davies inside the box, the Reading loanee muscled his way past the defence and drove into the top corner, leaving Burch with no chance.
Lincoln's poor finishing was best summed up in the 77 minute.
With time and space, Paul Green allowed Bull to make another good save from close range, Aaron Brown had an even easier chance from the rebound, but contrived to find the sidenetting from five yards.