S2's have coil split, SE semi's don't, and the S2 stoptail versions have the USA stoptail (vs the SE trem on the s2 custom).
To elaborate even more on the pickups, the S2 #7's are darker and mellow, the SE 245's in the ZM have a hot PAF vibe, with more bite and crunch. The Mira pickups were originally an uncovered 245 set, so they would probably be closer to the SE 245 set. I dig them both, just for different purposes. Both work for rock, the 7's more so for jazzy riffs, mellow blues, ultra creamy leads and clean or crunchy arpeggio riffs that won't get ice picky. The 245's for crunchier chording, tight heavy rock rhythms, more aggressive blues licks, etc.
I didn't care for the SE HFS/VB set in the 24 either. The bridge was hotter and brighter than I usually prefer, the neck too mid hollow, and for my tastes they were poorly matched. So if you echo any of those feelings, I think you'll like any of the other pickups.