The visitors impressed in the first-half and opened the scoring with a point from midfielder Eoin McKenna with Crokes replying through the free-taking prowess of Mark O'Loughlin.
St Enda's, with centre-back Tom Hanafin and midfielder Ben McEntee showing well, regained their dominance and a number of frees shared by goalkeeper Keith Robinson and Dublin minor James Roche ensured them a 0-7 to 0-4 interval advantage.
The hosts remained in the hunt with defenders Mark McCallion, James Murphy and Odhran Ó Siochrú all impressing while corner-back Cathal Bergin and full-back Donal Butler were equally steadfast in the Boden rearguard.
Chris Lambert stretched the visitors' lead early in the second-half but O'Loughlin's accuracy and a late score from dual player Ross McGowan confirmed parity at the end of 60 minutes at 0-10 apiece.
With Eoin Murphy to the fore at wing-forward, St Enda's gained the early momentum in extra-time but were rocked by a Dara Ó Galachóir goal.
However, Maguire's quick riposte and two late points from Roche effectively settled another in a long list of excellent encounters between these two neighbours.