A disappointing performance away from home ensured that Chester could not continue their impressive current form, losing this game courtesy of two second half goals.
Ben Heneghan put the ball into his own net just after the restart to the second half and Connor Essam sealed the win for the home side on 64 minutes.
The Blues were unchanged following their impressive win over Aldershot in midweek, but struggled to assert any dominance in the first half in Kent. Nick Deverdics had the first real chance of the half when he shot inches over with his second attempt, after his first shot was blocked. Ricky Miller then also went close for the hosts as his delicate chip landed just over the bar, and Michael Kay made an important block to ensure the determined Miller would not break the deadlock.
Chester then did break that deadlock a matter of seconds into the second half, unfortunately Heneghan put the ball into his own net. Tom Murphy's shot took a big deflection off the derby-day hero, and nestled into the net leaving Jon Worsnop stranded.
Steve Burr's side responded well after going behind. Craig Mahon had a shot turned behind by the goalkeeper, before Sean McConville failed to connect with a Kieran Charnock flick.
But the killer blow was executed by the hosts on 64 minutes.
Tom Murphy was allowed to cross after picking up the ball in fortunate circumstances, and he made the most of the opportunity as Essam connected to the cross and headed home from close range.
The visitors did push further forward in search of reward, but could not convert any chances. McConville was denied by the keeper and Mahon shot just wide, before the returning Craig Hobson headed just over and Kingsley James had a goal ruled out for offside.
John Rooney had a glorious chance late on, but hit his shot wide of the mark on a frustrating afternoon.
Chester FC: Worsnop, Heneghan, Kay, Charnock, G Roberts (Hobson 55), Mahon, Rooney, James, Winn (Touray 46), McConville (Menagh 76), Hughes.
Subs Not Used: C Roberts, Harrison.
Booked: Heneghan, Kay, Touray, Hughes, Hobson, Worsnop.
Goals: Heneghan (own goal) 47, Essam 64.
Referee: Christopher Powell (Dorset)