Well atleast it’s out. Although I’ve never had a bad one I have changed them just because I was there, which in and of itself usually turns into much deeper projects. Anyway, yes your shift handle is worn badly. I’ve talked with guys that have welded the groove to fill in the gap and then ground them back down to shape. I’ve always just exchanged them for new, way less work. When you pulled the shaft did you replace the lower bushing? I believe it’s made from the same material as the upper which as you know from yours was gone and would be way easier now. There is a trick to replacing it without pulling the column out but as far as you have gone now you are already there