St Colman's produced a devastating surge either side of half-time to ease through to the semi-finals.
The Newry lads won more comfortably than the scoreline suggests.
Kealan Rice and Dara Noonan helped St Colman's into a 0-4 to 0-2 lead in the opening quarter. Omagh then struck for a goal from Brendan Donaghy, with Ruairi Sludden landing two points.
St Colman's regrouped, with Conal Brown hitting a brace of points before Noonan punched in a goal to leave it 1-8 to 1-5 at the break.
The Newry lads kicked on, surging into an eight-point lead and never looked back. Tempers flared in injury-time with Omagh's Colm O'Neill and St Colman's Conall Gough red-carded.
Scorers – St Colman's: D Noonan 1-2 (1f), K Rice 0-4, J Haughey 0-3 (3f), C Sands, J Curran, C Brown 0-2 each, O O'Neill 0-1. Omagh CBS: R Sludden 0-6 (2f), B Donaghy 1-1, D Kavanagh 0-2 (2f), M Flanagan, S Fox, T McGrath (f) 0-1 each.
St Colman's – J O'Hare; A McKiernan, M Finnegan, J Brown; M O'Hare, J McDermott, C Brown; J Curran, C Gough; C Sands, D Noonan, O O'Neill; L McGreevy, J Haughey, K Rice. Sub: P Morgan for O'Hare.
Omagh CBS – S Fox; F McNulty, P McKenna, M Flanagan; C McCann, C O'Neill, C Meyler; B Donaghy, P McGirr; S O'Donnell, D Kavanagh, S Fox; R Sludden, T McGrath, A Fullerton. Subs: C McQuaid for McNulty, C Travers for McGirr, G Slane for Fullerton.
Ref – M Higgins (Fermanagh).