... and we usually take the positive square root of −1 as the value of "$i$".
There's no such thing as a positive or negative complex number. By treating $\mathbb{R}$ as a subset of $\mathbb{C}$ you can call some complex numbers positive or negative, but only those which actually are real numbers. There's no way to define a total order on $\mathbb{C}$ which would behave like the usual order on $\mathbb{R}$ does.
What happens is that one simply picks any root of $-1$, i.e. any solution of $x^2 + 1 = 0$, and calls it $i$. There's then always a second solution, and that solution is $-i$. You can't even say which solution you picked for $i$ - the two solutions of $x^2 + 1=0$ are algebraically indistinguishable, i.e. you cannot tell them apart with algebraic means.
Imagine a friend hands you a bag containing two balls, of equal size and material. You can pick one arbitrarily and call it "ball 1", and take a pen and mark it with a big "1". The other is then "balls 2", and gets marked with a big "2". Now, imagine you had picked the other ball. Would you end up in a different situation? No! You'd still have two balls, one marked "1" and one marked "2", and indistinguishable otherwise. Now, after you've marked the balls, they are of course different. You can now for example put both back into the bag, let your friend pick one, and ask "Which ball have you picked?". But that only works after you marked them!