Love my Pro, my biggest issue is the back seems to scratch easily.
Only bee a few days and I've not done anything rough with it, yet the back is littered with scratches. It speaks very poorly of such a premium device. Should I get back enough, I have Microsoft Complete to cover my ***, but still, it shouldn't even have to be something I need to worry about.
Other than that, no major issues. I have had one instance of the thing randomly restarting, and IE seems to close on occasion without warning (thankfully, due to tombstoning, I can quickly get back to where I was, however). A odd quirk I've picked up on is that using the Power Saver energy profile slaughters performance. I know it's supposed to reduce performance in favor of battery life, but damn, it really kills performance. Makes things very sluggish, actually causes my Pro to freeze.
Hopefully software updates will improve these issues with time. I don't have any big quarrels with them, except for the scratching issue (that really pisses me off). The Surface Pro 2 is an incredible device, just some growing pains, so it seems. Today in English class, we were using laptops to work in groups. Well, the school's laptops suck, so I decided to pull out my Surface and help ease the workload on the pathetic devices. All my group members seemed pretty mindblown, they thought it was really cool. I doubt they're going out to buy any Microsoft product in droves now, but mindshare is a powerful thing. Just seeing it in action could leave a lasting impression and math influence future purchase decisions.
Also, to the OP's complaints about the pen: I'm not an artist, but I actually really love the pen! I just think it's nice to use. The OS treats it as a regular mouse, so it's great for when using the desktop (far more precise and accurate taps with the pen over a finger). You can configure the exact options in the Control Panel, but by default: pressing and holding with the tip for a few seconds performs a right click. Holding down the button and pressing the tip also does a right click. In apps that take advantage of the active stylus (like One Note), the other end can be used as an eraser (really handy), otherwise, the other tip acts just liked the main tip.
It's a neat little thing. Not for everyone, of course, but I personally love it. It helps make the Surface experience for me, shame it's not an option on the Surface 2.