Sorry, I don't get any "self-irony" (or any other type of irony at all) regarding Lee's comments about scientific accuracy.
Considering it's such a major topic (scientific accuracy) in the comics world, Lee pretty much drops the ball and says nothing coherent about his or Marvel's true stance regarding the scientific basis for their characters. Maybe the PBS special will illuminate us more on this topic. At least we know THOR has a bit of logic behind his flying. But then again, Stan Lee simply talking is worth the price of admission.