Upon further review (not that it was needed)... The league admits its referees messed up. Repeatedly.

C/O Chris Forsberg

Case #1: A foul initially ruled as flagrant on Jermaine O'Neal was downgraded to a run of the mill personal foul. You know why? Because it was blatantly not flagrant. This botched call had serious repercussions: "O'Neal's flagrant led to a five-point possession for Miami and helped the Heat stem a third-quarter Boston rally." 

Case #2: A personal foul whistled on James Jones was upgraded to a flagrant. It's merely conjecture at this point, but maybe if Jones had been correctly whistled for the flagrant at the time of the incident, the recognition by the refs of the excessive nature of the foul would have served to calm Paul Pierce's nerves, and avoid his ejection. But who knows? It's all history now.