Do you think they came out of the factory like that?
The boot around the master cylinder piston is to stop dirt and water getting in to attack the back of the master cylinder piston seal - like the dust lip on an oil seal. If the master cylinder seal gets damaged from behind

it'll fail prematurely and possibly spectacularly.
I personally think KATMAN's spot on about the seal (I presume he's meaning the dust seals, not the piston seals, although I've seen both corroded grooves) and the grooves inside the caliper being clogged with shit too.
Also, what KATMAN states about the small hole in the reservoir is critical - if that's blocked air, can be drawn in past the master cylinder piston seal when the lever is released because the low pressure (vacuum) will not be broken.
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