Well, the reason of the strange-charm quark lies in GIM mechanism (which explained the lack of observation of flavor changing neutral currents), which in fact predicted the existence of the extra quark that was discovered later putting s and c in the same flavor SU2 doublet.
The other thing with SU2 doublets was the left-right movers which we introduced to explain the parity violation of the weak interactions. Someone before that would expect that both left/right handed movers would interact in the same way in every case. SU2 allowed us to distinguish between them two, putting the left movers in SU2 doublets and the right ones in SU2 singlets, thus under SU(2) they would be seen differently.
Why SU(3)xSU(2)xU(1)? Well this in fact, I don't know to answer. I don't think that people know... since we already know that it's just a broken subgroup in lower energies of higher symmetries (eg leptogenesis, baryogenesis, dark matter, massive neutrinos etc)