I have also had this issue. I do not know if SR1 really addressed the issu or not. It does not matter if you have the big runtime in another folder, or your main runtime. When you switch to the complex folder, it happens. While waiting for SR1, I broke my runtimes down into several different folders. It works, but it is a pain switching back and forth. I was going to try going back to one runtime, but your experience tells me to stick with my multiple runtimes.