Sure. if you want to be ultra-safe, use brake fluid. But the fact is, if you follow the instructions, you won't suck air back in, and the fluid which is exposed to the water (or rather exposed to the AIR which is exposed to the water), will never go back into the caliper or line system...
But brake fluid is cheap and you don't need much, so if it makes you feel better, by all means, use it.