We had a 3 time Pro Bowl QB in Garcia from 2000-2002
1999 was tough
Gotta be the 2003, which coincided with the beginning of the York regime, firing Mooch, and hiring Donahue, who actually lived and worked in Los Angeles. And this guy:
2004 brought us quite possible the worst team in NFL history -- the missed field goal returned for a touch down, Cody Pickett, Dorsey and The Rat.
Looking at the roster http://www.pro-football-reference.com/teams/sfo/2004_roster.htm
the team should not have been that bad but it was
2004 begat the Suit and Alex
The Suit begat the Cross