I imagine this has been discussed previously however I do not remember seeing it since i have not been reading issues lately as closely as I am now.

Our base has had 2 disables within 48 hours by the same legion. My members are calling foul, what say you? (please) ONE HAPPY LEGION WE ARE

Entirely possible. Once you repair you are added to the pool with everyone else. If that legion happened to find you (Whether through luck or design) it is entirely a numbers game. Sorry

It happens all the time.

1 hour after we got locked and killed by the honey badgers, x factor lcked us, with no ap... well, u guessed it, we lost.

people in smart legions, DONT REPAIR. that puts you back on the market for being slaughtered.. but hey, live and learn.

Bases do this wonderful thing where they AUTO REPAIR like 50 hull or some other stupidly low amount of hull.
If the RNG lets you get scanned twice in one day there isn't anything you can do to stop it.

bases actually never hit 0 hull. if you look at it when disabled theres still the hull there that was there before the kill shot. not repairing wont save you.

Then kindly explain the common occurrence of negative hull...

lag?
must not be all that common as i dont ever recall seeing negative hull myself. could have just missed it though.
may be the same thing that allowed multiple disables.

On no lag bases, i never see zero hull. Right after it dies, it gets its dmg cap worth of hull back, our base does the same.