1998-2006: 44 teams with 95-plus wins
2007-2016: 33 teams with 95-plus wins
I sought to see if a more mathematical calculation of competitive balance (CB) backs this up. I've looked at CB in the NBA in the past, and I applied this same technique to MLB (since 1998) by calculating the Noll-Scully Measure (NSM), which is the ratio of the actual standard deviation in each to season to the "ideal" standard deviation for that season. The lower the NSM, the greater CB there is in the league, with a perfectly balanced league having a ratio of 1.
In the two periods Schoenfiled indicated, there is indeed a difference in the NSM: it is much higher from 1998-2006, which implies less competitive balance.
1998-2006: 1.95 average NSM
2007-2016: 1.72 average NSM
For perspective, this season it is currently 1.724, which is right in line with the last decade, an era of more parity.