Seems like people might have missed this part of the article
Following that team meeting last August, the Angels finished the season on a 27-14 roll that nearly carried them into the playoffs in spite of everything. From the raw emotions came highly constructive results, one source calling it one of the best team meetings he's ever been a part of.
Among those constructive changes, sources say, was that Pujols, who had trouble accepting early last year that some of the Angels' veterans didn't need his guidance, was a terrific teammate the rest of the season.
So despite the near fight it was a positive for the team as they were able to blow off some steam and come to a better understanding of each other. It doesn't sound like Pujols was a bad clubhouse but just had trouble fitting in at first.