I think it is some kind of relief valve in the vacuum booster that supposedly can be damaged. I have yet to have a failed booster on any of my LUVs and have bled the brakes with the motor off several times. Sometimes you don't have a choice when you're trying to repair brakes before motor.
The thing I do worry about is when bleeding them on an old master cylinder that I haven't removed and repaired, I use a block of wood under the pedal to prevent it from going much below the normal pedal travel. It keeps the piston in the master cylinder from getting pushed into an area of the bore that it hasn't seen since new which is usually full of trash and grit. That fouls the seal and you end up replacing the MC soon after bleeding the brakes. Granted if you've had brake failure that led to the pedal going all the way to the floor you've probably already got problems with the MC seals, but not repeatedly bottoming the pedal might make it last a little bit longer.
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95 Isuzu Trooper Daily Driver
86 Isuzu Trooper reliable backup
77 LUV 2wd stock beltway blaster (resting)
79 4x4 LUV project: 2.6L, 5spd, 31s (eventually)
MEPR: Man, my 4x4 makes all other LUVs look good
