1995 --There you have it. The last year in which the World Series featured each league's best team was 1999. The only other time was in 1995.
Atlanta Braves (division winner; .625 W-L, best record in NL)*
Cleveland Indians (division winner; .694 W-L, best record in AL)
1996 --
Atlanta Braves (division winner; .593, best in NL)
New York Yankees (division winner; .568, second-best in AL)*
1997 --
Florida Marlins (wild-card team; .568, second-best in NL)*
Cleveland Indians (division winner; .534, fourth-best in AL)
1998--
San Diego Padres (division winner; .605 third-best in NL)
New York Yankees (division winner, .704, best in AL)*
1999--
Atlanta Braves (division winner; .636, best in NL)
New York Yankees (division winner; .605, best in AL)*
2000--
New York Mets (wild-card team; .580, fourth-best in NL)
New York Yankees (division winner; .540, fifth-best in AL)*
2001--
Arizona Diamondbacks (division winner; .568, fourth-best in NL)*
New York Yankees (division winner; .594, third-best in AL)
2002--
San Francisco Giants (wild-card team; .590, fourth-best in NL)
Anaheim Angels (wild-card team; .611, third-best in AL)*
2003--
Florida Marlines (wild-card team; .562, third-best in NL)*
New York Yankees (division winner; .623, best in AL)
2004--
St. Louis Cardinals (division winner; .648, best in NL)
Boston Red Sox (wild-card team; .605, second-best in AL)*
2005--
Houston Astros (wild-card team; .549, third-best in NL)
Chicago White Sox (division winner; .611, best in AL)*
2006--
St. Louis Cardinals (division winner; .516, fifth-best in NL)*
Detroit Tigers (wild-card team; .586, third-best in AL)
2007--
Colorado Rockies (wild-card team; .552, second-best in NL)
Boston Red Sox (division winner; .593, tied for best in AL)*
2008--
Philadelphia Phillies (division winner; .568, second-best in NL)*
Tampa Bay Rays (division winner; .599, second-best in AL)
2009--
Philadelphia Phillies (division winner; .574, second-best in NL)
New York Yankees (division winner; .636, best in AL)*
Of the 15 Series from 1995 through 2009, 9 were won by the inferior team, as measured by W-L record. Division winners opposed each other in only 6 of the 15 Series.
Wild-card teams appeared in 8 of the 15 Series. With an all wild-card Series in 2002, wild-card teams have occupied almost a third of the 30 Series slots -- 9 of 30.
As I have said, the winner of the World Series can claim nothing more than having been the better team over a span of four to seven games.