NFL does mix regular and post season. But..... he lead in winning percent among active qbs.
ACTIVE QUARTERBACKS WINNING PERCENTAGE
Minimum 32 Starts (two full seasons), Regular Season Only
Quarterback Team(s) W L T Pct.
Tom Brady NE 86 24 0 .782
Ben Roethlisberger PIT 39 16 0 .709
Donovan McNabb PHI 74 37 0 .667
Peyton Manning IND 106 54 0 .663
Brett Favre GB 160 93 0 .632
Matt Hasselbeck SEA 57 39 0 .594
Steve McNair TEN/BAL 91 62 0 .594
MOST VICTORIES / FIRST 100 STARTS IN SUPER BOWL ERA
Player Team(s) 1st Start 100th Start Wins
Tom Brady NE 9/30/01 10/14/07 76
Roger Staubach DAL 9/20/70 9/16/79 76
Ken Stabler OAK/HOU 10/17/71 9/21/80 72
Terry Bradshaw PIT 9/20/70 11/27/78 68
Brett Favre GB 9/27/92 10/25/98 68
Joe Montana SF 12/2/79 9/18/88 68