I'm on the original rears at 17,000 miles, maybe half worn but I use both the fronts and rear fairly equally. Second set on the front.
If the rear disc is torn up/rough, yes it'll eat pads faster.
More often what happens (usually the fronts), the caliper seals get old, the caliper piston sticks and doesn't release the pads fully (excessive dragging/wear). Yamaha recommends seal replacement every TWO YEARS. IME, in real life you can easily get twice that.
I would give the calpiers/brake pads a good cleaning with brake cleaner (some air if an air compressor is available too).
Then, pull the chain off the rear sprocket and set it aside(over the swingarm). Tighten everything back down, pump up the brakes and spin the rear tire. If the brakes are dragging excessively, the wheel won't rotate much and stop well within one rotation.
An easy, on the road way to check for excessive drag(applies to fronts and back brakes):
Go for a ride, say 50 MPH for 10-15 minutes then stop fairly quickly with the FRONT BRAKES ONLY. Carefully feel the rear rotor. It should be cool to cold. If its hot, there's an issue there with them dragging too much.
You can check the fronts doing the same procedure but stopping of course with the rear wheel only..
And Neil, if your pads are wearing unevenly, the caliper should be centering itself causing even wear to both pads. Cleaning and re-greasing (with brake specific grease) to the bolts/pins that the caliper slides on (and should center) should help with the un-even wear.