I'm probably not the right person to answer this, but I hope this may help explain it. There are many different "flavors" of silicone that can be produced: hard rubber, soft rubber, foam rubber, liquid adhesive, pressure sensitive adhesive, and yes, paint that includes silicone.
If I understand it correctly, silicone typically is bad for parts to be painted PROVIDED that the silicone is uncured. Cured silicone parts are used all the time by powder coaters, platers & painters to mask all sorts of auto and motorcycle parts with no detrimental effect, because the silicone is in a cured, hardened state. Cured, it leaves no residue.
The reason silicone is generally termed "bad" for painting is because nothing sticks to silicone, except another silicone based product (which is why silicone RTV adhesive will bond two pieces of silicone rubber). Problem is, most paints don't like silicone and won't adhere to it, so if any is left on the surface, the resulting finish will have imperfections (fish eyes, etc.).
On the other hand, because nothing sticks to silicone (except silicone based products), it would likely be advantageous to have a silicone based paint if, say, a tape with a silicone adhesive used for masking was leaving residue on a part. The paint would be more likely to adhere without requiring another wash cycle.
Alternatively, having a silicone based paint means parts painted with it would be easier to clean since things won't tend to stick to it. Many silicone products are used for medical applications because of its cleanliness, so a silicone based paint would likely exhibit many of those beneficial aspects.
Sorry this is so long. I'll let someone else dissect my theory if I got any parts of this wrong, but I hope that helps.