re: Doctors of the OT, how bad of shape am I in?

Hard to diagnose over the internet. By "dark" do you mean dark yellow as in concentrate? Or tea colored? If your urine is more yellow then your kidneys are doing their job in concentrating your urine and reabsorbing free water. You may think you're drinking enough but you're probably not.
If your urine is tea colored and you have no RBCs in your urine but it says something like 2+ blood then you should get checked for rhabdomyolysis.

Regardless, let your doctor decide what you need to get checked and not the internet.