Yup. I've used tablet PCs since the Windows XP Tablet Edition days and magnetic pen docks have always been a big no-no. The pens fall off more when handling because you bump into them when repositioning and they're easier to forget or 'lose' because the docking area generally becomes the one place you don't put it. In short, it might be counter-intuitive, but you need to be slightly more engaged with the stylus's maintenance than most people think. Too cumbersome and it impedes productivity, but too 'intuitive' and it will be lost in a week. But, I'm sure Apple will be happy to sell you a replacement!

I've had a Surface Pro 3 since release and have had to replace the stylus battery twice, so I'm getting ~1.5 years per battery. I would much prefer the old hidey-hole stylus dock to Apple or MS's current stylus docking.