The qualifying rounds for the1999–2000 UEFA Champions League began on 13 July 1999. In total, there were three qualifying rounds which provided 16 clubs to join the group stage.
Times areCEST (UTC+2), as listed by UEFA.
| Key to colours |
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| Qualify for thegroup stage |
| Eliminated in the Third qualifying round; Advanced to theUEFA Cup first round |
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The draw for this round was performed on 30 June 1999 inGeneva,Switzerland.
| Seeded | Unseeded |
|---|---|
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| Team 1 | Agg. Tooltip Aggregate score | Team 2 | 1st leg | 2nd leg |
|---|---|---|---|---|
ÍBV  | 3–1 |  Tirana | 1–0 | 2–1 |
Litex Lovech  | 5–0 |  Glentoran | 3–0 | 2–0 |
Žalgiris  | 5–0 |  Tsement Ararat | 2–0 | 3–0 |
HB  | 1–7 |  Haka | 1–1 | 0–6 |
Partizan  | 10–1 |  Flora | 6–0 | 4–1 |
Jeunesse Esch  | 0–10 |  Skonto | 0–2 | 0–8 |
Sloga Jugomagnat  | 2–2 (a) |  Kapaz | 1–0 | 1–2 |
Barry Town  | 2–3 |  Valletta | 0–0 | 2–3 |
St Patrick's Athletic  | 0–10 |  Zimbru Chișinău | 0–5 | 0–5 |
| Tirana | 1–2 | ÍBV |
|---|---|---|
| Report |
|
ÍBV won 3–1 on aggregate.
Litex Lovech won 5–0 on aggregate.
| Tsement Ararat | 0–3 | Žalgiris |
|---|---|---|
| Report |
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Žalgiris won 5–0 on aggregate.
Haka won 7–1 on aggregate.
Partizan won 10–1 on aggregate.
| Skonto | 8–0 | Jeunesse Esch |
|---|---|---|
| Report |
Skonto won 10–0 on aggregate.
2–2 on aggregate; Sloga Jugomagnat won on away goals.
| Valletta | 3–2 | Barry Town |
|---|---|---|
| Report |
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Valletta won 3–2 on aggregate.
Zimbru Chișinău won 10–0 on aggregate.
The draw for this round was performed on 30 June 1999 inGeneva,Switzerland. Unlike the future seasons of Champions League qualification, all winners of previous round were treated as unseeded regardless of their coefficients.[1]
| Team 1 | Agg. Tooltip Aggregate score | Team 2 | 1st leg | 2nd leg |
|---|---|---|---|---|
Rapid Wien  | 5–0 | Valletta | 3–0 | 2–0 |
Anorthosis Famagusta  | 3–2 |  Slovan Bratislava | 2–1 | 1–1 |
| Partizan | 6–1 |  Rijeka | 3–1 | 3–0 |
CSKA Moscow  | 2–4 |  Molde | 2–0 | 0–4 |
| Litex Lovech | 5–5 (2–3p) |  Widzew Łódź | 4–1 | 1–4 (a.e.t.) |
| Haka | 1–7 |  Rangers | 1–4 | 0–3 |
Dinamo Tbilisi  | 2–3 | Zimbru Chișinău | 2–1 | 0–2 |
Dnepr-Transmash Mogilev  | 0–3 |  AIK | 0–1 | 0–2 |
| Sloga Jugomagnat | 0–2 |  Brøndby | 0–1 | 0–1 |
Rapid București  | 4–5 | Skonto | 3–3 | 1–2 |
Beşiktaş  | 1–1 (a) |  Hapoel Haifa | 1–1 | 0–0 |
Dynamo Kyiv  | 3–0 | Žalgiris | 2–0 | 1–0 |
| ÍBV | 1–5 |  MTK Hungária | 0–2 | 1–3 |
Maribor  | 5–4 |  Genk | 5–1 | 0–3 |
| Valletta | 0–2 | Rapid Wien |
|---|---|---|
| Report |
|
Rapid Wien won 5–0 on aggregate.
Anorthosis Famagusta won 3–2 on aggregate.
Partizan won 6–1 on aggregate.
| Molde | 4–0 | CSKA Moscow |
|---|---|---|
| Report |
Molde won 4–2 on aggregate.
| Widzew Łódź | 4–1 (a.e.t.) | Litex Lovech |
|---|---|---|
| Report |
|
| Penalties | ||
| 3–2 | ||
5–5 on aggregate; Widzew Łódź won 3–2 on penalties.
Rangers won 7–1 on aggregate.
Zimbru Chișinău won 3–2 on aggregate.
AIK won 3–0 on aggregate.
Brøndby won 2–0 on aggregate.
| Rapid București | 3–3 | Skonto |
|---|---|---|
| Report |
Skonto won 5–4 on aggregate.
| Beşiktaş | 1–1 | Hapoel Haifa |
|---|---|---|
| Report |
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1–1 on aggregate; Hapoel Haifa won on away goals.
Dynamo Kyiv | 2–0 | Žalgiris |
|---|---|---|
| Report |
Dynamo Kyiv won 3–0 on aggregate.
| ÍBV | 0–2 | MTK Hungária |
|---|---|---|
| Report |
|
MTK Hungária won 5–1 on aggregate.
| Genk | 3–0 | Maribor |
|---|---|---|
| Report |
Maribor won 5–4 on aggregate.
The draw for this round was performed on 23 July 1999 inGeneva,Switzerland. Unlike the future seasons of Champions League qualification, all winners of previous round were treated as unseeded regardless of their coefficients.[1]
The losing teams advanced to the first round of the1999–2000 UEFA Cup.
| Team 1 | Agg. Tooltip Aggregate score | Team 2 | 1st leg | 2nd leg |
|---|---|---|---|---|
| Zimbru Chișinău | 0–2 |  PSV Eindhoven | 0–0 | 0–2 |
| Spartak Moscow | 5–1 | Partizan | 2–0 | 3–1 |
Chelsea  | 3–0 | Skonto | 3–0 | 0–0 |
| Rapid Wien | 0–4 | Galatasaray | 0–3 | 0–1 |
Fiorentina  | 5–1 | Widzew Łódź | 3–1 | 2–0 |
| AaB | 3–4 | Dynamo Kyiv | 1–2 | 2–2 |
| Rangers | 2–1 | Parma | 2–0 | 0–1 |
| Brøndby | 3–6 |  Boavista | 1–2 | 2–4 (a.e.t.) |
AEK Athens  | 0–1 | AIK | 0–0 | 0–1 |
| Hapoel Haifa | 0–4 |  Valencia | 0–2 | 0–2 |
Hertha BSC  | 2–0 | Anorthosis Famagusta | 2–0 | 0–0 |
| Sturm Graz | 4–3 |  Servette | 2–1 | 2–2 |
| Molde | 1–1 (a) | Mallorca | 0–0 | 1–1 |
Lyon  | 0–3 | Maribor | 0–1 | 0–2 |
| Croatia Zagreb | 2–0 | MTK Hungária | 0–0 | 2–0 |
Teplice  | 0–2 | Borussia Dortmund | 0–1 | 0–1 |
PSV Eindhoven won 2–0 on aggregate.
Spartak Moscow won 5–1 on aggregate.
Chelsea won 3–0 on aggregate.
Galatasaray won 4–0 on aggregate.
Fiorentina won 5–1 on aggregate.
| AaB | 1–2 | Dynamo Kyiv |
|---|---|---|
| Report |
Dynamo Kyiv won 4–3 on aggregate.
Rangers won 2–1 on aggregate.
Boavista won 6–3 on aggregate.
| AIK | 1–0 | AEK Athens |
|---|---|---|
| Report |
AIK won 1–0 on aggregate.
| Valencia | 2–0 | Hapoel Haifa |
|---|---|---|
| Report |
Valencia won 4–0 on aggregate.
Hertha BSC won 2–0 on aggregate.
| Sturm Graz | 2–1 | Servette |
|---|---|---|
| Report |
|
Sturm Graz won 4–3 on aggregate.
1–1 on aggregate; Molde won on away goals.
Maribor won 3–0 on aggregate.
| MTK Hungária | 0–2 | Croatia Zagreb |
|---|---|---|
| Report |
|
Croatia Zagreb won 2–0 on aggregate.
Borussia Dortmund won 2–0 on aggregate.
