there are a few TSB's (Technical Service Bulletins) and maybe a recall on the left switch assembly wire harness, which would probably be fixed on any new model arriving at the shop....but your dealer could tell you specifically about your bike by its VIN - most reputable/interested dealers would perform the tsb's or recalls prior to delivery
-- as for common ownership issues and problems:
-loose fairing fasteners (although this is mostly dealer prep forgetfulness, lack of tightening)
-loose gear shifter main bolt (look or mention this to your dealer before you head off on your first ride....it requires a few tools to fix it....roadside repair is a hassle)
-misting instrument cluster - nothing to do about it - if you ask for replacement you may get one.....but it will not remedy the situation - not worth worrying about it - the mist dissipates soon enough
-constant clutch bleed - known historical issue, from prior models dating back to 1994 and the 916 - all sorts of "fixes" have been discussed...nothing known to fully resolve it - best solution seems to be using an 11mm open end wrench to bleed the master cylinder as part of your routine when checking oil, tire pressure etc - someone recently reported using higher boil point fluid from brembo helps
-surprise at removing rear wheel finding the single nut is over torqued from the factory - starting with a stainless steel socket, and an air impact wrench is the best way to go about it - the cheaper aluminum sockets will cause anguish and grief - trying to use a breaker bar has mixed results....some not good at all
-on the r model some stutter/stumble/surge at the 3 to 5k rpm window - i believe the S models have this as well - EBC set to 3 (almost off) or just off helps a lot - just off however is truly too much engine breaking for most riders
-"soft paint" - the fairing tends to chip, easily - not a big deal if you ride a lot (the bike will show milage regardless) but if you like things kept new looking you may be disappointed - many have used clear film applications to help solve the issue - probably best single thing you can do is stay back from your buddy and his finder eliminator kit throwing pebbles/stones/sticks & boulders at you
-adding a PowerCommander or aftermarket fuel management mapping may not be the wisest choice - but many swear by them - for street riding i don't think the increased fuel usage warrants whatever gains you may get (unless it eliminates the surging...even then it would be questionable, as the surge is easily ridden around
-opps...forgot about the charcoal canister - get rid if it...have your dealer do it - if it fills up with over flow fuel, it causes a vapor lock situation and your bike will not start.....or worse, the gas tank implodes