Yeah, to clarify in case you or your GM go digging any further:
Runner's Companion p.84 actually lists Pixies as having Vanishing rather than Vanish in the weaknesses entry.
Vanishing is found in Running Wild and is a power, not a weakness.
There is a weakness statted out in the Runner's Campanion called Vanish (RC, 85). Vanish does exactly what TheNarrator has been talking about.
Chummer is technically not wrong, it gave you exactly what the Runner's Companion to told it to give you. But it's extremely likely that this is just a case of sloppy editing in the RC, and the authors wrote Vanishing instead of Vanish in the Pixie entry on p 84 simply by mistake.