Also, I wouldn't be worried about the warranty not covering that, JT. I think they just want to avoid thousands of people each year doing exactly what you did, and bringing it back for "warranty service", when it's not really a warranty issue.
In my opinion, unless you have the tools and knowledge to perform an accurate setup, it's best to go to someone who know what they're doing, and also will be patient enough to listen to your needs and perhaps explain a bit about the setup process along the way!
I used to be addicted to the "lowest string height possible" for years! Eventually, I grew away from that. I would suggest attempting to adapt to the height suggested by your tech. I play a parker nitefly with jumbo hardened steel frets (and a very unique shape/edge), but fortunately I just fell in love with the action immediately! The guy I bought it from works on guitars (amazing work....cheap!) and it was set up perfectly....until I "locked" the bridge!! Then I had buzz everywhere! Ick! Anyway, he fixed in for free and also "blocked" my bridge with a wooden block, since the parker "locked" bridge isn't truly locked! He taught me a bunch about guitars while performing the setup. More than anything, I learned that a mere 1/64th of an inch makes a HUGE difference! So, I don't adjust my own setups anymore, and leave it to the pros!