A goal up at half-time through Steven Schumacher, Stevenage were beaten by a second-half Cobblers fightback which pushes the crisis-hit hosts into fourth place in League Two.
And Sheringham could not hide his disappointment afterwards, saying: "I thought we played very well. I felt like we were in control."
For Northampton, who will find out their FA Cup 1st Round opponents on Monday evening, it is another battling three points against a backdrop of off-field problems.
The hope for supporters is that their efforts will not be in vain.
