Well, not quite almost done, but looking the way it should at this point.
Murky is normal. Give the bacteria time to settle out. Either that or your filtration is too weak. Definitely add on those extra filters you have, after you clean them out. The cloudiness will usually go away once you've got enough gph of filtration and the cycle is complete. Understocking is an even better way to avoid cloudiness.
No, never ever let crap stay in the tank. Keep a new turkey baster that has never seen soap near your tank and anytime you see a turd, suck that polluter out of there. A shrimp net is good, too, but lets a small cloud of waste trail out of the poo as you remove it. Either way, with turtles, you will never stop battling. You could also add a strong powerhead to your tank and point it down to stir the poo up into your filter, but then you have a nasty filter. I prefer to remove turds when I see them. Usually every other day I get my arm in there and scoop out whatever I see. Barebottom tank is best for this, especially in a heavily stocked tank that you're genuinely determined to keep as healthy as possible.
Background opinion? I like pure black, but blue isn't too bad, either. Out of the two options you have, I'd choose blue.