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I think the best way to go about this is to customize the Lahman database. Maybe it's just because I work with databases, but that seems like the easiest thing (probably easiest using MS Access and then exporting to csv when done).
You pull out the five years in question for all players. Query to create average seasons for all players. Determine how you want to do team placement. Export to csv.
If you want to have multiple iterations of the same player for different teams, you have it generate a new master.csv and have it create the player id key out of the old one plus the team abbreviation.
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