Hi Wunwinglow,
Interesting (annoying/sad) to read the issues regarding the new 1000 strom, have had a 650 AL2 for almost a couple of years now and as you rightly say the engine is a peach and still is! (had posted my thoughts on it in the early days under 'vee or wee'), the only fault I can find with the bike is a slight vibration caused by the crash bars fitted, dissappears completely when the bars are removed, an issue highlighted elsewhere on this site, I had a 2002 vee before and some of the issues your experiencing now were present in that bike, it needed very careful balancing every year to stop the coughing and backfiring, (very nearly blew the rear injector body off in Italy!!) and would vibrate/shudder horribly if it was revving too low, even at 70 in top gear up a hill, annoyed me sooo much in the end I traded it in for the 650.
I guess my point is would you be happy with the 650? it is a very fine bike but personally I still miss the overtaking grunt of the thou and I'm sure a well set up 1000 would be a joy, I rang a dealer only this morning inquiring about trading in my little 650 for a 1000 but reading all this post I think I may hang fire a bit longer.
I wish you the best of luck in getting your bike running right but it should run perfect straight from the crate like the 650.
I guess some dealers know how to set them up and others don't, how about could starting a list of where good 2014 vstrom 1000 dealer/mechanics are.
Don