It's not necessarily missing stats...it might have too many. For example, I did about 5 seasons of CSVs at a time and I put GS for batters in every one...had to redo them all and the msg went away.
It helps to have a working CSV file (one the utility doesn't choke on) to do a cut-and-paste compare, see if one of the files has different columns than the other. Outside of that, you probably should just do the CSVs again. I know what it's like to be sure that you did them right, but then to find out that you didn't.
