I don’t have a VM100, but I do own VM120 and VM150. My jaws and jaw slides are numbered. Are they numbered on the VM100 and on your 35mm pin jaws? I know it’s a dumb question but if they are numbered, are they all in the jaws all matched up? Other than alignment tweaking, all things being equal, I can’t imagine why your run out increased. Perhaps, your chucks jaw slides got damaged?
I have a similar problem with my 20 year old one way talon and 25mm pin jaws. They will not automatically hold a dowel straight without the help of the tailstock. There is too much play in the jaw slides. I can not rely on it to rechuck a piece that was previously trued. I still use it a lot with its inaccuracies for small stuff that gets trued up unique to the piece that I am turning. After all, most woodturning chucks were not designed with the tight tolerances that are required to hold piece true. For those instances, a Collet chuck or a jacobs chuck.
So I echo
@john lucas recommendations.