Rotating tires really should never cause a warranty issue.
However, I've seen shops cause major problems with fluid changes. Using the wrong fluid, or not following the procedure correctly can wreak havoc. Modern vehicles can often have oddly specific requirements for which fluid is necessary and how to properly check the level. Many transmissions, for example, require you to warm them up to a specific temperature (as confirmed via scan tool) and shift through gears and then check the fluid within a certain time window. If you don't follow that procedure you'll under/over fill them.
My motorcycle has a baffling procedure for checking engine oil fill. You have to start the engine and warm it for several minutes, then shut it off, wait at least 2 but not more than 3 minutes and check the level. This is not only annoying, but it makes me wonder: How do we know it's safe to start/run the engine if we don't already know the fluid level is correct? What was wrong with the "old" sight glasses? I used to be able to bend over and immediately know if the oil level was correct. I'd check it every time before I rode. Now, I can't. /Rant
I cringe when I see people at the "quick lube" places; asking for mistakes, in my opinion.