Sure, Ghost in the Shell did a lot to emulate cinematic convention and certainly helped "elevate" animation as a medium for film (as if it ever needed to be), but as far as I'm concerned Mamoru Oshii has always been rather ambivalent to that kind of perception of his work. You might recall his qualms with Studio Ghibli when they really started to brand themselves as such at the height of Hayao Miyazaki's initial international success in the late 1990s and early 2000s, criticizing them for distancing themselves from the word "anime" and its associated adult-oriented, not-so-cinematic connotations. A lot of Japanese animators at the time were contemplating what exactly made animation distinct from film, when in actuality, and as Oshii once put it: "all film is becoming animation." I think it's tragic that so much of the "bad" CG composited anime from this period have yet to receive blu-ray releases. In my opinion, visually, they've aged much better than people think. It would be interesting to compare them all with the slew of cel-shaded anime we got in the 2010s but that's a different discussion.
Where would you say Oshii has done better? Urusei Yatsura 2: Beautiful Dreamer was my first thought, but that was twenty years ago up until that point. When it comes to Innocence, I think the Donna Haraway cameo that occurs fifteen minutes in should tell you everything you need to know about the film from thereon. That is to say, Innocence was never meant to be a direct sequel. In fact, it's much easier (and more interesting!) to talk about it as a standalone feature situated in the GITS franchise than one explicitly connected to the original 1995 film.