^Bala Town were drawn as the home team in the original draw, but the tie was switched to a home match of Standard Liège due to the inability of Bala Town to secure a suitable venue.[12]
^ abcThe Lincoln Red Imps v Prishtina match, originally scheduled to be played on 18 August 2020, was postponed to 22 August 2020 due to several members from Prishtina's delegation testing positive for SARS-2 coronavirus and the whole team being put into quarantine by the Gibraltarian authorities.[2] On 22 August, the match could not be played due to eight players from Prishtina testing positive for SARS-2 coronavirus and the whole second team being put into quarantine by the Gibraltarian authorities.[3][4] Lincoln Red Imps were subsequently awarded a technical 3–0 victory by UEFA according to the regulations related to COVID-19.[5][6]
^The Tre Penne v Gjilani match, originally scheduled to be played on 20 August 2020, 21:00, was postponed to 21 August 2020, 20:00,[7] due to one player from Gjilani testing positive for SARS-2 coronavirus.[8]
^NSÍ Runavík played their home match at Svangaskarð, Toftir, instead of their regular stadium Við Løkin, Runavík, which did not meet UEFA requirements.
^ abB36 Tórshavn played their home matches at Tórsvøllur, Tórshavn, instead of their regular stadium Gundadalur, Tórshavn, which did not meet UEFA requirements.
^ abHonvéd played their home matches at Hidegkuti Nándor Stadion, Budapest, instead of their regular stadium Bozsik József Stadion, Budapest, as it was demolished to be replaced by their new stadium Bozsik Aréna, Budapest.
^ abKukësi played their home matches at Arena Kombëtare, Tirana, instead of their regular stadium Zeqir Ymeri Stadium, Kukës, which is under reconstruction.
^ abcHapoel Be'er Sheva played their home matches at HaMoshava Stadium, Petah Tikva, instead of their regular stadium Turner Stadium, Be'er Sheva, which was temporarily closed for structural problems with the roof.[9]
^ abThe Nõmme Kalju v Mura match, originally scheduled to be played on 27 August 2020, 16:30 (17:30 EEST), at Kadriorg Stadium, Tallinn, was postponed to 10 September 2020, 19:30 CEST, and moved to Szusza Ferenc Stadion, Újpest (Hungary), due to one player from Nõmme Kalju and one player from Mura testing positive for SARS-2 coronavirus, after Meistriliiga and Slovenian PrvaLiga matches on 22 August respectively, and both whole teams being put into quarantine by the Estonian authorities.[10]
^ abApollon Limassol played their home matches at GSP Stadium, Nicosia, instead of their regular stadium Tsirio Stadium, Limassol, which did not meet UEFA requirements.
^The Maccabi Haifa v Željezničar match, originally scheduled to be played on 27 August 2020, 19:00 (20:00 IDT), was postponed to 9 September 2020, 19:00 (20:00 IDT), due to five members from Željezničar's delegation testing positive for SARS-2 coronavirus and the whole team being put into quarantine by the Israeli authorities.[11]
^Alashkert played their home match at Vazgen Sargsyan Republican Stadium, Yerevan, instead of their regular stadium Alashkert Stadium, Yerevan, which did not meet UEFA requirements.
^ abProgrès Niederkorn played their home matches at Stade Municipal, Differdange, instead of their regular stadium Stade Jos Haupert, Niederkorn, which did not meet UEFA requirements.
^Petrocub Hîncești played their home match at Zimbru Stadium, Chișinău, instead of their regular stadium Stadionul Municipal, Hîncești, which did not meet UEFA requirements.
^Iskra Danilovgrad played their home match at City Stadium, Podgorica, instead of their regular stadium Braća Velašević Stadium, Danilovgrad, which did not meet UEFA requirements.
^Gjilani played their home match at Fadil Vokrri Stadium, Pristina, instead of their regular stadium City Stadium, Gjilan, which is under reconstruction.
^Kaisar played their home match at Kazhymukan Munaitpasov Stadium, Shymkent, instead of their regular stadium Gani Muratbayev Stadium, Kyzylorda.
^TSC Bačka Topola played their home match at City Stadium, Senta, instead of their city stadium in Bačka Topola.
^Sfântul Gheorghe played their home match at Zimbru Stadium, Chișinău, instead of their regular stadium Suruceni Stadium, Suruceni.
^Laçi played their home match at Elbasan Arena, Elbasan, instead of their regular stadium Laçi Stadium, Laç.
^Renova played their home match at Petar Miloševski Training Centre, Skopje, instead of their regular stadium Ecolog Arena, Tetovo.
^VfL Wolfsburg played their home match at AOK Stadion, instead of their regular stadium Volkswagen Arena, as a cost-saving measure.[13]
^Shkëndija played their home match at Toše Proeski Arena, Skopje, instead of their regular stadium Ecolog Arena, Tetovo.
^FCSB played their home match at Marin Anastasovici Stadium, Giurgiu, instead of their regular stadium Arena Națională, Bucharest.
Note: Between the 2004–05 and 2008–09 seasons, the competition was still known as the UEFA Cup, but is included as it followed a group stage—knockout phase format.
Gjilani
Iskra Danilovgrad
HB Tórshavn
Barry Town United
Víkingur Reykjavík
FCI Levadia
Derry City
Inter Turku
Union Titus Pétange
Slavia Sofia
Dinamo-Auto
Žilina
Hibernians
Dinamo Batumi
Željezničar
Renova
Universitatea Craiova
Lech Poznań
Dynamo Moscow
Galatasaray
Copenhagen
Kolos Kovalivka
Slovan Liberec
Hajduk Split
Hartberg
Milan
PSV Eindhoven
Tottenham Hotspur