The group stage of the 2005–06 UEFA Cup is the second stage of the competition proper. Group stage matches began on 20 October 2005 and concluded on 15 December 2005. The top three teams in each group progressed to the Round of 32, to be joined by the eight third-place finishers from the Champions League group stage.

The following teams qualified for the group stage:^[1]

More information Team, Coef. ...

Team	Coef.	Team	Coef.	Team	Coef.
Pot 1		Pot 2		Pot 3
CSKA Moscow (title holders)	34.469	Sevilla	36.326	Shakhtar Donetsk	28.200
Roma	73.191	Marseille	36.324	Heerenveen	26.145
Stuttgart	58.166	PAOK	35.715	Dnipro Dnipropetrovsk	24.200
Monaco	53.324	Slavia Prague	35.233	Hamburg	24.166
Hertha BSC	46.166	Basel	33.887	Red Star Belgrade	21.012
Lokomotiv Moscow	38.469	Middlesbrough	32.864	Bolton Wanderers	20,864
Beşiktaş	37.872	Espanyol	29.326	Sampdoria	20.191
AZ	37.145	Lens	29.324	Palermo	20.191
Pot 4		Pot 5
Steaua București	20.101	Vitória de Guimarães	14.739
Brøndby	19.676	Litex Lovech	14.118
Grasshoppers	18.887	Halmstad	13.076
Zenit Saint Petersburg	18.469	Viking	12.665
Levski Sofia	18.118	Dinamo București	12.101
Strasbourg	17.324	Rapid București	8.101
Rennes	16.324	Maccabi Petah Tikva	7.218
CSKA Sofia	15.118	Tromsø	6.665

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Based on paragraph 6.06 in the UEFA regulations for the current season, if two or more teams are equal on points on completion of the group matches, the following criteria are applied to determine the rankings:

1. superior goal difference from all group matches played;
2. higher number of goals scored;
3. higher number of goals scored away;
4. higher number of wins;
5. higher number of away wins;
6. higher number of coefficient points accumulated by the club in question, as well as its association, over the previous five seasons.