The 1998–99 EHF Champions League was the 39th edition of Europe's premier club handball tournament. FC Barcelona won their 5th title and 4th in a row. For a second time in a row they beat Badel 1862 Zagreb in the final.

Team	Pld	W	D	L	GF	GA	GD	Pts
Badel 1862 Zagreb	6	5	0	1	150	127	+23	10
Fotex KC Veszprém	6	3	0	3	147	130	+17	6
Montpellier HB	6	3	0	3	134	134	0	6
H.C. Alpi Prato	6	1	0	5	128	168	−40	2

Team	Pld	W	D	L	GF	GA	GD	Pts
FC Barcelona	6	5	1	0	186	135	+51	11
ZTR Zaporozhye	6	3	0	3	148	154	−6	6
Pfadi Winterthur	6	2	1	3	154	160	−6	5
SKA Minsk	6	1	0	5	136	175	−39	2

Team	Pld	W	D	L	GF	GA	GD	Pts
THW Kiel	6	6	0	0	181	149	+32	12
Kaustik Volgograd	6	3	0	3	166	168	−2	6
GOG Gudme	6	2	0	4	160	180	−20	4
Viking Stavanger	6	1	0	5	166	176	−10	2

Team	Pld	W	D	L	GF	GA	GD	Pts
Celje Pivovarna Lasko	6	4	1	1	178	142	+36	9
Portland San Antonio	6	4	0	2	167	158	+9	8
Redbergslids Göteborg	6	3	1	2	146	141	+5	7
HC Kovopetrol Plzen	6	0	0	6	129	179	−50	0

Team 1	Agg.Tooltip Aggregate score	Team 2	1st leg	2nd leg
ZTR Zaporozhye	43–48	Badel 1862 Zagreb	21–22	22–26
Fotex KC Veszprém	53–58	FC Barcelona	29–29	24–29
THW Kiel	48–50	Portland San Antonio	21–24	27–26
Kaustik Volgograd	41–51	Celje Pivovarna Lasko	18–22	23–29

Team 1	Agg.Tooltip Aggregate score	Team 2	1st leg	2nd leg
Celje Pivovarna Lasko	61–62	FC Barcelona	35–32	26–30
Badel 1862 Zagreb	50–48	Portland San Antonio	27–22	23–26

Team 1	Agg.Tooltip Aggregate score	Team 2	1st leg	2nd leg
Badel 1862 Zagreb	40–51	FC Barcelona	22–22	18–29

• EHF Champions League website