The baseball, fencing, and golf teams apparently all received 1000s for the 2009-2010 year. How is this measured exactly? I'm guessing 1000 is a perfect score? Looking at the averages across all schools, St. John's is better than average.
Assuming you are a 2 semester school it basically works this way. Say you have 10 players for 09-10. You get 1 point for retention and 1 point for remaining in good academic standing for each player per semester. So a perfect score per player would be 4 points. Thus a perfect score for that year would be 40 points.
Let's say a kid transfers but stays through both semesters and leaves in good academic standing (say Dwayn Polee). OK you get the 2 full points for the 1st semester and 1 of the 2 in the second semester (you lose the retention point). Thus you get 3 out of 4 for that player.
Where a school like Syracuse or Ohio St gets hurt is when a kid declares for the Draft (like Jonny Flynn) and then withdraws from school. Why would he have any motivation to stick around, right? He is going to the NBA. So you lose not only the retention point but the good standing point because he doesn't even finish that year and take his finals. So you get only 2 out of 4 and when you have too many of those you can hurt your score.