Hi MPRS,
I think 26d refers to a person - I'm not entirely sure who but it specifies "US" which I don't think it would do if it was a computer game character.
Some of the 'containment' words in the thematic phrases really surprised me - "bi...." and "re.." for example, I never would have thought they shared that definition.
There are still a couple I can't fully parse - 27a and 27d and also the first letter of 6d where the last 4 letters are "unaltered" so the first letter must come from "after 11" but why?