On my server I only have /v, /v toggle (and it says 'You have nothing you can toggle'), /v check, and /v list. I have no other vanish commands. And also, when I /v it doesn't do any lightning. Please help because this is only 1 out of about 3 issues I am having with my server.

What permission nodes have you granted for yourself?

All () and even vanish.

If you granted vanish.* you'd have access to everything. Ask your permissions plugin developers for help if their documentation isn't helping.