as far as im aware there are two things you can do,
1, get the touch up paint and carefully fill in the marks, mine has been done by the previous owner and you harly see it until youre way close and really looking for it
2, my friend (another Mini2er) has a red mini with a lot of stone chips and he got the bonnet and bumper resprayed for not very much money at all and looks as good as new!
unless somebody else knows of some super dooper thing for them then thats it!
hope this helps ya out!