I think it's a bad idea to try to press the bullet back onto a perfect zero runout number. This would have the tendency to loosen the bullet in the case neck, reducing neck tension.
The runout correction tools assume a lot... assume being the operative word. They assume that the runout is caused by the bullet just needing a slight shift inside the case neck. They assume you can do this with with a little push to high side of the bullet...
...but in reality, you're probably just bending the case neck to make things look good. Or the case shoulder area. You could even be deforming the bullet, to some extent.
Runout under .005" never really seems to make a lot of difference.
Runout over that number needs to be corrected by preventing it from happening in the first place, with proper die set up and good brass, well prepped...
My opinion... but there it is.