Hey as someone who rides something most people don't like, I say go for it! You have to be happy with your bike and no one else. Besides, I'm sorry but they don't get much uglier than a 999 IMHO...
I had the same problem in '99 when I wanted to get rid of my '97 YZF1000. I wanted a "Hypersport" but hated the looks of the "Busa" and didn't want a Honda, especially with linked brakes. So I put money on the ZX12. Well, after a year of delays and problems, I finally broke down and bought that fugly 'Busa. Looks aside, it was possibly the best "streetbike" I've ever owned.