| 2012-12-26 | ColchestervBrentfordLeague One · England | 1–3 | League One · England |
| 2012-12-22 | WalsallvColchesterLeague One · England | 1–0 | League One · England |
| 2012-12-15 | BournemouthvColchesterLeague One · England | 1–0 | League One · England |
| 2012-12-08 | ColchestervOldhamLeague One · England | 0–2 | League One · England |
| 2012-11-24 | Milton Keynes DonsvColchesterLeague One · England | 5–1 | League One · England |
| 2012-11-20 | ColchestervCoventryLeague One · England | 1–3 | League One · England |
| 2012-11-17 | ColchestervBuryLeague One · England | 2–0 | League One · England |
| 2012-11-10 | CrewevColchesterLeague One · England | 3–2 | League One · England |
| 2012-11-06 | ColchestervNotts CountyLeague One · England | 0–2 | League One · England |
| 2012-10-27 | ShrewsburyvColchesterLeague One · England | 2–2 | League One · England |
| 2012-10-23 | Leyton OrientvColchesterLeague One · England | 0–2 | League One · England |
| 2012-10-20 | ColchestervCarlisleLeague One · England | 2–0 | League One · England |
| 2012-10-13 | ColchestervStevenageLeague One · England | 1–0 | League One · England |
| 2012-10-06 | YeovilvColchesterLeague One · England | 3–1 | League One · England |
| 2012-10-02 | SwindonvColchesterLeague One · England | 0–1 | League One · England |
| 2012-09-29 | ColchestervHartlepoolLeague One · England | 3–1 | League One · England |
| 2012-09-22 | ScunthorpevColchesterLeague One · England | 1–0 | League One · England |
| 2012-09-18 | ColchestervCrawley TownLeague One · England | 1–1 | League One · England |
| 2012-09-15 | ColchestervDoncasterLeague One · England | 1–2 | League One · England |
| 2012-09-08 | BrentfordvColchesterLeague One · England | 1–0 | League One · England |
| 2012-09-01 | TranmerevColchesterLeague One · England | 4–0 | League One · England |
| 2012-08-25 | ColchestervSheffield UnitedLeague One · England | 1–1 | League One · England |
| 2012-08-21 | ColchestervPortsmouthLeague One · England | 2–2 | League One · England |
| 2012-08-18 | PrestonvColchesterLeague One · England | 0–0 | League One · England |
| 2012-05-05 | Notts CountyvColchesterLeague One · England | 4–1 | League One · England |
| 2012-04-28 | ColchestervTranmereLeague One · England | 4–2 | League One · England |
| 2012-04-21 | BournemouthvColchesterLeague One · England | 1–1 | League One · England |
| 2012-04-14 | ColchestervSheffield WedsLeague One · England | 1–1 | League One · England |
| 2012-04-09 | BuryvColchesterLeague One · England | 4–1 | League One · England |
| 2012-04-06 | ColchestervHartlepoolLeague One · England | 1–1 | League One · England |
| 2012-03-31 | ExetervColchesterLeague One · England | 1–1 | League One · England |
| 2012-03-27 | WalsallvColchesterLeague One · England | 3–1 | League One · England |
| 2012-03-24 | ColchestervCarlisleLeague One · England | 1–1 | League One · England |
| 2012-03-20 | StevenagevColchesterLeague One · England | 0–0 | League One · England |
| 2012-03-17 | ColchestervHuddersfieldLeague One · England | 1–1 | League One · England |
| 2012-03-13 | ColchestervSheffield UnitedLeague One · England | 1–1 | League One · England |
| 2012-03-10 | WycombevColchesterLeague One · England | 0–0 | League One · England |
| 2012-03-06 | CharltonvColchesterLeague One · England | 0–2 | League One · England |
| 2012-03-03 | ColchestervPrestonLeague One · England | 3–0 | League One · England |
| 2012-02-28 | OldhamvColchesterLeague One · England | 1–1 | League One · England |
| 2012-02-25 | ColchestervRochdaleLeague One · England | 0–0 | League One · England |
| 2012-02-18 | YeovilvColchesterLeague One · England | 3–2 | League One · England |
| 2012-02-14 | ColchestervBrentfordLeague One · England | 2–1 | League One · England |
| 2012-01-28 | Leyton OrientvColchesterLeague One · England | 0–1 | League One · England |
| 2012-01-21 | ColchestervChesterfieldLeague One · England | 1–2 | League One · England |
| 2012-01-14 | ColchestervScunthorpeLeague One · England | 1–1 | League One · England |
| 2012-01-02 | Milton Keynes DonsvColchesterLeague One · England | 1–0 | League One · England |