The most interest was raised in the signing of Pascal Zuberbühler in a goalkeeper swap with Stefan Huber who then went to Grasshopper Club.

In the outwards direction Mario Frick transferred to Zürich, Abedi to Yverdon and Fabrice Henry to Hibernian (on loan).

Here Basel played the semi-final against Brazilian team Ituano FC, which was lost, and the third place match against Croatian Dinamo Zagreb, in which they also suffered a defeat.

The season started sub-optimal, the team remained unbeaten, but with just three wins and four draws in the first seven rounds, they lost contact to the table leaders.

Basel suffered their first home defeat on 2 October against Yverdon-Sports, but they ended the Qualification Round in second position in the league table.

However, in their last four matches Basel won only two further points and dropped to third position behind champions St Gallen and Lausanne, against whom the final game of the season ended in a 0–3 home defeat on 7 June 2000.

In the next round a home game against Grasshopper Club, ended in a draw and was eventually won in the penalty shoot out.

Note: Flags indicate national team as defined under FIFA eligibility rules; some limited exceptions apply.

Note: Flags indicate national team as defined under FIFA eligibility rules; some limited exceptions apply.