I was kicked from a channel with the message.

"you will not version check me again."

What does this mean ?

likely that you ctcp version'd them, which is sometimes rude to do without asking (and any reason), especially to ops.

lol rude.. that's what its for

OMG YOU CHECKED MY VERSION

how do you ctcp version someone ?
I need to know so I can avoid doing it again.
Is it when you click on someone's name ?

You would have to either right-click their nick and choose CTCP > Version or otherwise manually type /ctcp nickname version - it's never done automatically. If you haven't done either of those things then maybe you have a script doing it. Or perhaps it was just mistaken identity.

I did neither of those things and was not running any scripts.