Hi and welcome to the board.
Your bike has only covered 1800 miles so a big service is not really required.An interim service should suffice.As Henners said,its a matter of changing the fluids and a general check over.Ducati Glasgow seem to be a good bunch of blokes and can advise you better than us.
Yep your mudguard clamp should be covered by warrenty,again ask Ducati Glasgow.
Hmmm,no feel from the Michelin tyres,.....I bet they are those 'orrible Pilot Sports.Bin them and fit the newer Pilot Powers or Pirelli Diablo's.
As for exhausts,there is a number of companies that make 'road legal' cans to fit i.e SS.Look for Arrow.LeoVince,Remus,Sil Motor,etc.These are stamped up with the relevent 'E' mark but have removeable baffles for 'track days'.
Most of the i.eSS bikes have the same fitting,(750,900,1000) so exhausts from these bikes should fit.(Dont go for cans from the carbed SS tho!)Ebay is your friend!