Perhaps I can be of some help here. The association of quantum mechanics with indeterminacy is, I think, due to a failure on the part of physicists to properly communicate with the general public. It is true that QM proposes that there is a certain "vagueness" to the universe at the smallest of scales. However, this vagueness is not quite the same thing as indeterminacy. While it could, in some sense, be called randomness, quantum effects are precisely the reason that the universe operates in a deterministic fashion on larger scales, and it is quantum effects that gives the universe its fundamental order.
The fundamental object in quantum mechanics is the wave function. We often talk of the wave function as describing the probability of finding quantum particles in certain locations. However, when Erwin Schrodinger first wrote down his famous equations (at least it's famous among physicists), he did not know what the wave function was. At first it was merely a linear algebraic tool -- an eigenvector or eigenfunction as it's known in the business -- which he used to calculate physical observables such as energies. The connection between the wave functions and probability isn't entirely obvious.
Nor does it point to an inherent disorder or chaos to the universe. If you are fairly well-versed in physics, you know that gas discharge lamps operate by stripping electrons from gas molecules. The electrons release photons as they transition to their initial state. Now these lamps emit light at very specific energies, and this effect occurs precisely because of the quantum nature of hydrogen electrons. So one can see that if not for the random behavior of the hydrogen electron, the hydrogen atom would not have the precise, predictable energies that it does!
Furthermore, we needn't even think of the wave function as fundamentally indeterminate. The idea of quantum mechanics is that rather than being at an "indeterminate," quantum particles are delocalized when they remain unobserved by some measuring apparatus. So it would make no sense to say that "the particle's position can't be precisely known," when QM is really saying that quantum particles don't even have a defined location until they are observed.
I think that one of my old undergraduate quantum mechanics textbooks puts it best:
To the layman, the philosopher, or the classical physicist, a statement of the form "this particle doesn't have a well-defined position" (or momentum, or x-component of spin angular momentum, or whatever) sounds vague, incompetent, or (worst of all) profound. It is none of these. But its precise meaning is, I think, almost impossible to convey to anyone who has not studied quantum mechanics in some depth. (Griffiths, Introduction to Quantum Mechanics, pg 176-177)
Ultimately quantum mechanics is a mathematical science, and the wave function is a mathematical object that doesn't entirely have a physical analogue. I think that a lot of the philosophizing about QM goes on because people attempt to compare the wave function to classical objects, when such a comparison isn't possible.
We can be certain, from the Scriptures, that God is sovereign. The order that arises
due to quantum mechanics confirms that God has ordained all things for our good, so that we can repent of our sins and have faith in Jesus Christ. Without it we would certainly not live in a world so conducive of human life.