Four points for a win, two for a draw, one bonus point for four tries or more (BP1) and one bonus point for losing by seven or less (BP2).
If teams are level at any stage, tiebreakers are applied in the following order:
• Difference between points for and against
• Total number of points for
• Number of matches won
• Aggregate number of points scored in matches between tied teams
• Number of matches won excluding the first match, then the second and so on until the tie is settled
The top four teams in the league were Toshiba, Suntory, Yamaha, and Toyota. They played in the Microsoft Cup (2007) knock-out tournament to fight it out for the Top league title, which was officially integrated into the league from this season as the "Top League Play-off Tournament Microsoft Cup".
The top-placed regional teams from East Japan, West Japan and Kyushu played each other in Challenge 1. The top two were automatically promoted, replacing the 13th and 14th teams which were automatically relegated. The third-placed team played the 12th placed Top League team, with the winner of that game taking a Top League place.
The second-placed regional teams played each other in Challenge 2 for the right to play the 9th through 11th placed Top League teams, with the winner of each promotion/relegation match taking a Top League place.