Hammer or pliers, when have I ever used those???
First things first, you need new IDE cables, LONG ones. So go and get some in your preferred color, as long as you can find them. Same goes for the floppy cable, get yourself a true round cable, and make it long.
While you're shopping, by some 4pin molex extension cables, I would probably get four or five, they're cheap.
Next thing, are zipties which it looks like you have. Get more if you need them, I buy black ties in 100 packs for like $.99 / pack. Along with the zipties you need the hold-downs for them. They're square pieces of plastic with a loop in the middle for your tie to go through and have an adhesive sticky back for mounting.
Start off by getting that stuff, then we'll look at where we want to route some of these hideuos cables