I agree..I had a M6...no warmth..no power....hated those pups..great player though.
Personally I'd prolly go with something beefy....it's a thin sounding guitar in my experience...prolly a 59b or a standard Custom for the bridge....Vintage rails in the middle, and a cool rails or lil 59 in the neck....that way you can get decent strat cluck sounds if ya want them...though with the neck through that will rob some of the strat character
For the Explorer: I'd do a pair of 59's or a Custom in the bridge and 59 neck, which I had in my Explorers...
Those would beef up the guitars a bit and make them pretty versatile.