The qualifying rounds for the 2006–07 UEFA Champions League began on 11 July 2006. In total, there were three qualifying rounds which provided 16 clubs to join the group stage.

First qualifying round

The first legs were played on 11 July and 12 July 2006, with the second legs on 18 July and 19 July.
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First leg

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Second leg

Ekranas won 3–1 on aggregate.
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FH Hafnarfjörður won 4–3 on aggregate.
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Liepājas Metalurgs won 2–1 on aggregate.
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MyPa won 2–0 on aggregate.
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Cork City won 2–1 on aggregate.
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Sioni Bolnisi won 2–1 on aggregate.
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Rabotnički won 1–0 on aggregate.
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Široki Brijeg won 2–0 on aggregate.
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B36 won 5–2 on aggregate.
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Gorica won 5–3 on aggregate.
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Sheriff Tiraspol won 2–0 on aggregate.

Second qualifying round

The first legs were played on 25 July and 26 July 2006, with the second legs on 1 August and 2 August.

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First leg

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Second leg

Steaua Bucureşti won 5–0 on aggregate.
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Levski Sofia won 4–0 on aggregate.
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Red Bull Salzburg won 3–2 on aggregate.
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Ružomberok won 3–2 on aggregate.
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Rabotnički won 5–2 on aggregate.
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Red Star Belgrade won 4–0 on aggregate.
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Fenerbahçe won 9–0 on aggregate.
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Mladá Boleslav won 5–3 on aggregate.
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Spartak Moscow 1–1 Sheriff Tiraspol. Spartak Moscow won on the away goals rule.
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Dynamo Kyiv won 8–1 on aggregate.
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Legia Warsaw won 3–0 on aggregate.
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Copenhagen won 4–2 on aggregate.
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Dinamo Zagreb won 9–3 on aggregate.
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Hearts won 3–0 on aggregate.

Third qualifying round

The first legs were played on 8 August and 9 August 2006, with the second legs on 22 August and 23 August.

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The teams eliminated in this round qualified for the first round of the UEFA Cup.

^* Due to the armed conflict going on in Israel, UEFA decided that no European matches could be staged in the country until further notice. The match was played at Lobanovsky Dynamo Stadium

Lobanovsky Dynamo Stadium

Dynamo Stadium named after Valeriy Lobanovskiy is a football stadium in Kiev, Ukraine. It is currently used for football matches, and is the home of FC Dynamo Kyiv...

 in Kiev

Kiev

Kiev or Kyiv is the capital and the largest city of Ukraine, located in the north central part of the country on the Dnieper River. The population as of the 2001 census was 2,611,300. However, higher numbers have been cited in the press....

, Ukraine

Ukraine

Ukraine is a country in Eastern Europe. It has an area of 603,628 km², making it the second largest contiguous country on the European continent, after Russia...

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First leg

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Second leg

Spartak Moscow won 2–1 on aggregate.
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Shakhtar Donetsk won 4–2 on aggregate.
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Valencia won 3–1 on aggregate.
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Levski Sofia won 4–2 on aggregate.
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AEK Athens won 5–1 on aggregate.
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CSKA Moscow won 5–0 on aggregate.
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Milan won 3–1 on aggregate.
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Galatasaray won 6–3 on aggregate.
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Steaua Bucureşti won 4–3 on aggregate.
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Benfica won 4–1 on aggregate.
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Arsenal won 5–1 on aggregate.
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Copenhagen won 3–2 on aggregate.
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Osasuna 1–1 Hamburg. Hamburg won on the away goals rule.
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Dynamo Kyiv won 5–3 on aggregate.
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Liverpool won 3–2 on aggregate.
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Lille won 4–0 on aggregate.