| Rank | Team | Runs Allowed | Record |
| 1. | Seattle Mariners, 1977 | 1126 | 52-110 |
| 2. | Colorado Rockies, 1994 | 1085 | 60-102 |
| 3. | Milwaukee Brewers, 1995 | 1075 | 64-98 |
| 4. | Oakland A's, 1977 | 1074 | 47-115 |
| 5. | Colorado Rockies, 1999 | 1071 | 58-104 |
| 6. | Colorado Rockies, 1996 | 1064 | 75-87 |
| 7. | Colorado Rockies, 1998 | 1049 | 60-102 |
| 8. | Texas Rangers, 2000 | 1047 | 61-101 |
| 9. | Texas Rangers, 2001 | 1028 | 64-98 |
| 10. | Minnesota Twins, 1975 | 1027 | 63-99 |
| 11. | Minnesota Twins, 1996 | 1019 | 76-86 |
| 12. | Milwaukee Brewers, 1994 | 1013 | 60-102 |
| 13. | Detroit Tigers, 1994 | 1012 | 73-89 |
| 14. | Milwaukee Brewers, 1999 | 1010 | 65-97 |
| 15. | Baltimore Orioles, 2000 | 1010 | 66-96 |
| 16. | Minnesota Twins, 1994 | 1008 | 73-89 |
| 17. | Chicago White Sox, 1985 | 1005 | 53-109 |
| 18. | Minnesota Twins, 1977 | 998 | 68-94 |
| 19. | Seattle Mariners, 1979 | 997 | 68-94 |
| 20. | Kansas City Royals, 2000 | 996 | 56-106 |
| 21. | St. Louis Cardinals, 2000 | 996 | 61-101 |
| 22. | Chicago White Sox, 1998 | 988 | 69-93 |
| 23. | Oakland A's, 1997 | 987 | 62-100 |
| 24. | Florida Marlins, 1994 | 986 | 65-97 |
| 25. | Baltimore Orioles, 1987 | 981 | 59-103 |
| 26. | Detroit Tigers, 1995 | 978 | 66-96 |
| 27. | Toronto Blue Jays, 2001 | 976 | 54-108 |
| 28. | Texas Rangers, 1997 | 975 | 80-82 |
| 29. | Milwaukee Brewers, 1996 | 962 | 78-84 |
| 30. | Colorado Rockies, 2000 | 961 | 85-77 |
| 31. | Toronto Blue Jays, 1977 | 959 | 60-102 |
| 32. | Boston Red Sox, 2001 | 959 | 60-102 |
| 33. | Colorado Rockies, 2001 | 958 | 73-89 |
| 34. | Milwaukee Brewers, 2001 | 958 | 79-83 |
| 35. | St. Louis Cardinals, 1994 | 957 | 67-95 |
| 36. | Detroit Tigers, 1996 | 954 | 65-97 |
| 37. | Minnesota Twins, 1983 | 952 | 65-97 |
| 38. | San Francisco Giants, 1979 | 951 | 57-105 |
| 39. | Colorado Rockies, 1993 | 951 | 76-86 |
| 40. | New York Giants, 1944 | 950 | 56-98 |
| 41. | Toronto Blue Jays, 1999 | 948 | 62-100 |
| 42. | Philadelphia A's, 1940 | 941 | 58-96 |
| 43. | Chicago White Sox, 1997 | 940 | 68-94 |
| 44. | Toronto Blue Jays, 1996 | 936 | 65-97 |
| 45. | Milwaukee Brewers, 1985 | 935 | 57-105 |
| 46. | St. Louis Cardinals, 1956 | 933 | 48-106 |
| 47. | Detroit Tigers, 1999 | 933 | 75-87 |
| 48. | Florida Marlins, 1993 | 931 | 53-109 |
| 49. | Atlanta Braves, 1987 | 930 | 64-98 |
| 50. | San Francisco Giants, 1999 | 927 | 71-91 |