The HS-3 and the YJM are almost identical except that the YJM has "vintage 50's staggered" poles, and it's just a tiny bit brighter sounding.
Anyway, the HS-3 was introduced 25 years ago and is the "old technology" where "hum-cancelling single-coil" pickups are concerned. And at 23.75kOhm, 93mV, I doubt you would get great results when used in combination with any humbucker that's either in humbucking or split mode.
If the HS-3 sound suits your tastes, fine, especially if used with other HS-3's, HS-2's or YJM's. But if you're looking to get as many sounds as possible by combining it with humbuckers and you want a pickup that sounds closer to a genuine single-coil pickup, I think a better choice is one of the newer VirtuAL 2 or Virtual Vintage models.
Just my 2 cents worth.