In the 1990 Intertoto Cup no knock-out rounds were contested, and therefore no winner was declared.

Teams

Group stage

The teams were divided into 11 groups of 4 teams each.

Group 1

Pos	Team	Pld	W	D	L	GF	GA	GD	Pts
1	Neuchâtel Xamax	6	5	0	1	9	2	+7	10
2	Sparta Prague	6	4	1	1	13	9	+4	9
3	Lyngby BK	6	2	0	4	9	12	−3	4
4	Admira Wacker Wien	6	0	1	5	7	15	−8	1

Group 2

Pos	Team	Pld	W	D	L	GF	GA	GD	Pts
1	Tirol Innsbruck	6	4	1	1	12	6	+6	9
2	Bochum	6	3	1	2	8	6	+2	7
3	St. Gallen	6	3	1	2	8	7	+1	7
4	Slavia Sofia	6	0	1	5	3	12	−9	1

Group 3

Pos	Team	Pld	W	D	L	GF	GA	GD	Pts
1	Lech Poznań	6	5	0	1	15	7	+8	10
2	Maccabi Haifa	6	3	2	1	14	5	+9	8
3	Siófok	6	2	1	3	5	9	−4	5
4	Bnei Yehuda	6	0	1	5	5	18	−13	1

Group 4

Pos	Team	Pld	W	D	L	GF	GA	GD	Pts
1	Slovan Bratislava	6	4	1	1	17	3	+14	9
2	Vejle BK	6	4	1	1	11	9	+2	9
3	IFK Norrköping	6	1	2	3	9	16	−7	4
4	MTK Budapest	6	1	0	5	5	14	−9	2

Group 5

Pos	Team	Pld	W	D	L	GF	GA	GD	Pts
1	Malmö FF	6	3	2	1	10	4	+6	8
2	Kaiserslautern	6	2	3	1	11	9	+2	7
3	Energie Cottbus	6	3	1	2	10	10	0	7
4	Bohemians Prague	6	0	2	4	2	10	−8	2

Group 6

Pos	Team	Pld	W	D	L	GF	GA	GD	Pts
1	GAIS	6	3	2	1	13	7	+6	8
2	Brøndby	6	3	1	2	15	11	+4	7
3	Karlsruhe	6	2	1	3	12	12	0	5
4	Hansa Rostock	6	2	0	4	7	17	−10	4

Group 7

Pos	Team	Pld	W	D	L	GF	GA	GD	Pts
1	FC Luzern	6	4	1	1	13	8	+5	9
2	Plastika Nitra	6	2	3	1	6	3	+3	7
3	Örebro	6	2	2	2	8	6	+2	6
4	Tatabánya	6	0	2	4	7	17	−10	2

Group 8

Pos	Team	Pld	W	D	L	GF	GA	GD	Pts
1	Vienna	6	3	2	1	7	5	+2	8
2	AGF Aarhus	6	2	3	1	6	3	+3	7
3	Vasas	6	2	2	2	4	5	−1	6
4	Gefle IF	6	0	3	3	3	7	−4	3

Group 9

Pos	Team	Pld	W	D	L	GF	GA	GD	Pts
1	Chemnitz	6	3	2	1	4	2	+2	8
2	Sturm Graz	6	2	3	1	9	3	+6	7
3	Fortuna Düsseldorf	6	2	2	2	6	6	0	6
4	Petrolul Ploiești	6	1	1	4	6	14	−8	3

Group 10

Pos	Team	Pld	W	D	L	GF	GA	GD	Pts
1	Bayer Uerdingen	6	3	2	1	11	7	+4	8
2	Olimpija Ljubljana	6	2	2	2	10	8	+2	6
3	FC Berlin	6	2	1	3	7	9	−2	5
4	Grasshopper Club	6	2	1	3	10	14	−4	5

Group 11

Pos	Team	Pld	W	D	L	GF	GA	GD	Pts
1	OB	6	2	4	0	12	6	+6	8
2	Pirin Blagoevgrad	6	3	2	1	8	5	+3	8
3	Osijek	6	2	1	3	9	10	−1	5
4	Sportul București	6	0	3	3	6	14	−8	3