Well, first off C-41 dyes are not meant to be viewed by people, just print materials, so the colors are not an exact match for the human eye as is the E6 dye set! Second, more research goes into C41 and ECN dyes due to the much larger market. So, there have been more advances in negative, masked dye sets and print dye sets than in reversal dye sets.
Second, some stabilizers use Sodium Formaldehyde Bisulfite, an odorless form of Formaldehyde that releases the formalin in the coating. This is used in the E6 pre-bleach. So, from a stability standpoint, modern E6 and modern C41 are not compatible.
PE