The FA Trophy is an annual football competition for teams at levels 5-8 of the English National League System. Exeter played for the first time after they were relegated to the Conference at the end of 2002/3 season.
They reached the semi final in 2005/06, where they lost a two-legged match to Grays by 3-2, Lee Phillips missing a penalty at Grays in the second leg.
The largest crowd was at Aldershot in 2004.
Exeter's leading scorers in the competetion are:-
Sean Devine 5, Steve Flack 4 and Gareth Sheldon, Billy Jones and Lee Phillips all with 3 goals.

FA Trophy
Date	Match	Score	Scorers	Attendance	Round	Notes
January 10, 2004	Exeter City vs Hereford United	3-2	Devine, Coppinger, Sheldon	2740	R3
February 4, 2004	King’s Lynn vs Exeter City	0-3	Sheldon, Devine, Flack	3127	R4
February 14, 2004	Exeter City vs Arlesey Town	3-0	Flack 2, Sheldon	2544	R5
February 28, 2004	Aldershot vs Exeter City	2-1	Devine	3810	QF
January 15, 2005	Billericay Town vs Exeter City	2-2	Jake Edwards, Devine	1380	R3
January 25, 2005	Exeter City vs Billericay Town	2-0	Clay, Devine(pen)	2766	R3 Replay
February 5, 2005	Tamworth vs Exeter City	0-3	Devine, Taylor, Edwards	1216	R4
February 26, 2005	Stamford AFC vs Exeter City	0-1	Amapdu	1058	R5
March 12, 2005	Grays Athletic vs Exeter City	4-1	Sheldon	1822	QF
December 18, 2005	Exeter City vs Bishop Stortford	2-1	Jones (B), Robinson	1807	R1
January 14, 2006	Exeter City vs Histon	3-2	Jones (B), Mackie, Challinor	2103	R2
February 4, 2006	Exeter City vs Cambridge City	1-0	Pope (og)	2166	R3
February 25, 2006	Exeter City vs Salisbury City	3-1	Phillips 2, Flack	3653	QF
March 18, 2006	Exeter City vs Grays Athletic	2-1	Phillips, Todd	3051	SF 1
March 25, 2006	Grays Athletic vs Exeter City	2-0	:	2693	SF 2	Grays won 3-2 on aggregate
December 16, 2006	Exeter City vs Heybridge Swifts	3-0	Gill, Jones(B), Cozic	1576	R1
January 13, 2007	Exeter City vs Kidderminster Harriers	0-1	:	2418	R2
December 15, 2007	Exeter City vs Salisbury City	3-0	Mackie, Moxey, Basham (pen)	2151	R1
January 12, 2008	Rushden & Diamonds vs Exeter City	3-0	:	1098	R2
Setanta Shield
Date	Match	Score	Scorers	Attendance	Round	Notes
21/12/2007	Exeter City vs Ebbsfleet Utd	2-3	Stansfield, Basham	1009	R1	After extra time
Errea Cup
Date	Match	Score	Scorers	Attendance	Round	Notes
July 13th 2009	Exeter City v Ilfracombe	4-1	Logan, Stansfield, Harley, Panther	360	R1
July 17th 2009	Eastliegh v Exeter City	P-P	:	Bye	R1	Postponed Weather
July 18th 2009	Luton v Exeter City	3-2	Russell, McAllister	N/K	S-F