My max score is in the 200s, so there is probably a better way.
Basically, I set up landing patterns like a real airport would. My base and final legs are very short to get the planes to the ground as quickly as possible. The core strategy is getting the aircraft into the downwind leg. Once I get into the hundreds I often find myself stacking up legs and creating an s-curve to get the planes in.
The key issue here is the speed of the big jets, I typically give them their own runway, or try to land them in the gaps. I often will leave some space to extend the downwind leg of the fighters and bombers so I can jam a jet in quickly. It is often advantageous to delay the "next-in-line's" landing to give yourself time to think.
This isn't a foolproof plan, as unlike a real airport (I hope), there are always planes coming from the edges that ruin your careful plan. Also unlike an airport, I find on the desert plan that it's useful to have the planes cross the bottom runway just past the point where the planes land, this provides a useful highway for getting to the middle of the map.