[1][2] Augsburg had been forcibly relegated to the Bayernliga for financial reasons despite finishing eighth in the Regionalliga in 1999–2000.
FC Memmingen and Würzburger FV won promotion back to the league in the following season while 1.
FC Sand and ASV Neumarkt both returned in 2012 when the league was expanded to two divisions.
[4] Rico Hanke of TSV 1860 München II was the top scorer of the league with 25 goals.
TSV 1860 München Amateure returned to the Bayernliga after a league championship in 1999 and four seasons in the Regionalliga.