Mainz beat Bayer Leverkusen, while Dortmund drew with Hoffenheim and Stuttgart beat St Pauli.
Striker Marius Ebbers has agreed a new deal to prolong his stay at St Pauli until June 2012.
Surprise pace-setters Mainz failed to reclaim top spot in the Bundesliga after losing 1-0 to Hamburg.
St Pauli hope to secure a deal with Premier League outfit Fulham with regards to sharing players.
St Pauli climbed into the top half of the Bundesliga table with a 1-0 win away to high-flying Hannover.
St Pauli have suffered another defensive blow after right-back Carsten Rothenbach was injured in training.
St Pauli defender Fabio Morena is facing 'several weeks' on the sidelines after suffering a knee injury.
Bayern Munich were stunned by high-flying Mainz while Borussia Dortmund continued their fine form.
Borussia Dortmund moved into second spot with a thumping win over Kaiserslautern, while Wolfsburg overcame Hamburg.
St Pauli striker Richard Sukuta-Pasu is facing four to six weeks out after rupturing ankle ligaments.
Mladen Petric was Hamburg's late hero against St Pauli as he came off the substitutes' bench to grab a leveller.
Mainz continued their perfect start to season as Cologne edged to victory in Sunday's action.
Mainz produced a superb comeback to shock Wolfsburg 4-3 at home in Bundesliga action on Saturday.
Hoffenheim enjoyed the perfect start to their Bundesliga campaign with a 4-1 victory over Werder Bremen.
Skysports.com assesses the 18 Bundesliga clubs ahead of the start of the new season on Friday.
A review of all the action from Sunday's DFB-Pokal German Cup first round fixtures.
St Pauli and Hannover crashed out of the DFB-Pokal as they lost to Chemnitz and Elversberg, respectively.
St Pauli have been rocked by the news that Gerald Asamoah is expected to miss the start of the season.
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