The next time this happens please send the .c2d file, generated G-Code, step-by-step notes on how you secured the stock and set zero relative to it and managed the tool changes (including enabling/disabling any accessories) and we’ll do our best to assist.
I will note that when I enable/disable any accessory I quit out of Carbide Motion, relaunch it, re-initialize the machine, and continue from a known/consistent state — I don’t think the case of accessory just disabled (or enabled) gets much testing.