Hi Cameron, I would keep it as two sets of books, one for the Business (Partnership) and the other for personal. You may even want to consider keeping your personal finances in Quicken for the sake of simplicity. If you do decide to move them across though, when creating the file for the personal books, just be sure to leave all the agricultural commodities unchecked and that way you can set up a custom chart of accounts to track the personal income and expense items you prefer.
