How do you keep track of collection progress?

I would look at the threads What does your spreadsheet look like? and Set Checklist Spreadsheet Inspiration for inspiration.

For getting something together quick, I would just start with copying over the set list into a spreadsheet from bulbapedia and add columns for Japanese / 1st Edition / Shadowless / Unlimited for the example of base set. Then in each of these you could do a comma separated list like 1 (PSA 9), 1 (PSA 7), 3 in the actual cell to show quantity.

It really depends on how you organize your collections currently and what your goals are though.

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