Hi nahoo7,
If you mainly want to use your Amiga 2000 computer for playing vintage games, then yes, remove the KS 3.1 ROM and replace it with a KS 1.3 ROM. As you know the vintage Amiga games are better then the newer ones. You can also use a Kickstart ROM Switcher Board. This way you can have both KS 1.3 and 3.1 plugged in. This is how I have it set up on my Amiga 2500. I have KS 1.3, 2.04, and 3.1 plugged in. :-D