I guess 10+ years and Billions of dollars spent on military missile development didn't give the Mercury guys much of a head start?
SS1 was multiples of factors of safety better than Mercury. NASA calculated that Al Shepard had about a 50/50 chance of surviving the launch. Rutan built in many more graceful failure modes into SS1 than any NASA vehicles have ever had.
Again, Rutan had the luxury of technology and composites that already exist...much of it from the efforts within NASA. In a way, NASA paid for much of his work.