Pijpers led Estonia first in World Cup 2002 qualification with two wins over Andorra and two draws with Cyprus. He achieved almost the same result in Euro 2004 qualification beating twice Andorra again, and drawing with Croatia (away) and Bulgaria (home). At World Cup 2006 qualification Pijpers won the first two games against Liechtenstein and Luxembourg. However the contract was terminated mutually with national team after a conflict with the FC Flora chairman Aivar Pohlak, who was the head of the Estonian Football Association at that time.[2] All together under Pijpers the Estonian national team played 55 games winning 16 and drawing 14 (29.09% of winning).
Kazakhstan National Team
Pijpers led Kazakhstan in their first European campaign in Euro 2008 qualification.[3] They recorded wins over Serbia (home) and Armenia (away) and drew both matches against Belgium and Azerbaijan. Pijpers then extended his contract until the end of World Cup 2010 qualification[4] and Kazakhstan proved to be very ambitious with the board feeling that they could qualify for the FIFA World Cup. Pijpers however disagreed and after a poor start to the 2010 FIFA World Cup qualification campaign, he was fired by the Kazakhstan Football Association as they felt he was not being aggressive enough. All together under Pijpers the Kazakhstan national team played 36 games winning seven and drawing 11 (19.44% of winning).
Alma-Ata
In July 2007, whilst continuing as Kazakhstan's Manager, Pijpers took up the role as Consultant at FC Alma-Ata in preparation for their UEFA Cup debut.[5]