City were already two down and the Blues were unable to hit back in the second period.
A first half brace from Nick Chadwick but the Toffemen ahead - the second a penalty after he was bundled over by Bischoff.
A City comeback failed to materialise and Alex Nyarko's 25 yard drive on 76 minutes but the game beyond the Blues.
City came closest through man-of-the-match, Jonathan D'Laryea.
City: Ellegaard; Bischoff, Wiekens (Murphy 83), Dunne, Jordan; Reyna, D'Laryea, Whelan (Ireland 81), Berkovic (Tandy h-t); Fowler, Elliott.
Unused subs: Schmeichel, Collins.
Attendance: 1,159.