Is there a way for me to make a group and have it revoke to all plugins so that player will be having a vanilla experience in a modded server.

I know that some plugins have permission based commands but not all.

Trying to see if I could recoke Gather Manager, Info Panel and those sort of plugins.

You can create a plugin that intercepts all console/chat commands and denies them based on a permission or group, then the player wouldn't be aware.