Prospect Rankings for each organization will be updated once a month, in order to keep you up-to-date on the depth of your team's farm system throughout the season. One organization will be updated per day, beginning in April 2009. Below is the schedule of when your team's rankings will be updated:
| NL EAST | AL EAST |
| 1st – Philadelphia Phillies | 17th – New York Yankees |
| 2nd – New York Mets | 18th – Boston Red Sox |
| 3rd – Florida Marlins | 19th – Baltimore Orioles |
| 4th – Washington Nationals | 20th – Toronto Blue Jays |
| 5th – Atlanta Braves | 21st – Tampa Bay Rays |
| NL CENTRAL | ALCENTRAL |
| 6th – Chicago Cubs | 22nd – Chicago White Sox |
| 7th – Milwaukee Brewers | 23rd – Minnesota Twins |
| 8th – Cincinnati Reds | 24th – Kansas City Royals |
| 9th – Houston Astros | 25th – Cleveland Indians |
| 10th – Pittsburgh Pirates | 26th – Detroit Tigers |
| 11th – St. Louis Cardinals | AL WEST |
| NL WEST | 27th - Los Angeles Angels of Anaheim |
| 12th – Los Angeles Dodgers | 28th – Oakland A’s |
| 13th – Arizona Diamondbacks | 29th – Texas Rangers |
| 14th – San Diego Padres | 30th – Seattle Mariners |
| 15th – San Francisco Giants | - |
| 16th – Colorado Rockies | - |
