Notice it says ENGINE oil filler cap, the oil tank isn't the engine, and that's the only other filler cap. The crankcase is part of the engine, in fact it's the base of it. I think you're getting hung up on semantics.
Notice how in 13 they reference the "engine oil TANK"? There would be no reason to reference the tank part of that unless the step in #12 was different.
The manual does it's best to be clear but sometimes people need pictures to help them understand or to verify what they're reading. That's what this thread is for, clarification.
Hey Mad Dog, Your method is the best way and I did it that way when I changed the oil and it worked great.
My point above was just to show/highlight 1) how the 2007 Manual isn't consistent with its wording and 2) it also does not have you pour oil directly into the crankcase which I think it should. Maybe later year manuals are written that way.
It has you remove the crankcase plug in an earlier step to vent the draining oil and then they want you to reinstall it (step 12) and "torque" to the specified rating before you start to put oil into the quad (step 13) by adding to just the tank.
As for symatics, I work in a "high tech" industry and have to read and sometimes correct technical manuals and procedures everyday for my job so the wording is very important to me on most procedures as it can mean the difference between a successful repair and a happy customer or very expensive damage and an irrate customer!
2007 Yamaha Raptor 2/8/2011-
Amsoil Synthetic Oil
GYTR Sport Bar, Engine/Frame Skid, Swing Arm Skid
Dr. D Reverse, Voyager Trail Tech, Houser Nerf Bars
2019 Grizzly 700 Camo EPS
2018 CFMoto CForce 500s
1987 Yamaha Warrior (1986-1989) Was heavily Modified.