I am also new to the motorcycling world. I went with Honda's CBR250R over the Ninja for a few reasons. Non-abs (because I just don't think I can wait)
-Fuel Injection! (this is probably the most important feature that makes it so I won't even take a used Ninja for less than 1k difference in price)
-Higher torque, less shifting during city riding, easier to get going from traffic signals/stop signs.
-Unique look/to have a different bike than all the other beginners (at least for a little while) I like the Ninja's agressive look, however the CBR just appeals more to me.
-I find the top speed to be negligible between the two.
-The fuel gauge and more modern display.
-slightly better MPG which is the main reason I am getting a bike (or at least the main reason my wife said yes).
-Honda reputation (although I must admit I would probably say Kawi's rep if I chose that bike...
-Not a real sway point, but the Honda dealer is closer so that's a nice bonus.
-forecast of high resale value (although like the MPGs I think it really may not be that different from the Ninja)