How are you powering the lnb's? Splitters in the coax lines, power pass to an analog (which is also used to select polarity?), blocked side to diseqc sw. for the FTA? Maybe when you connected directly to the FTA box, you had vertical TP's selected (FTA receiver). FTA box only outputs 13v then. LNB's like at least 18v.(Horizontal programmed TP;s) Some LNB's don't work at all on 13v.
Maybe draw a diagram and post it. (easier than describing)
Swapping the C and Ku coaxes at the LNB's, and scanning C. If 'channels' are found, the Ku side power to LNB is ?.( Ku LNB powered by the C coax, C band LNB powered by Ku wire,)
If C band is working, swap C and Ku lnb diseqc ports. If switch port is bad, C will stop working, Ku returns.
If it's slowly 'died out' >>but little by little it's gone away<< I would suspect bugs nests in the feed horn, dish settling, tipping pole, etc.(Ku beamwidth is narrower than C band on a BUD) Could also be corrosion in a connector. Have you tried blind scanning Ku? LNB may have drifted off frequency(??) That could be 'little by little'.
Could be the LNB, but think you'd take out a diseqc switch before the LNB if you moved wires with power applied. And don't think that would cause your 'little by little' but would be all or nothing. .
Taking out all switches, splitters, etc. and making it as simple as possible. Band by band, Then adding components is, in many instances, the quickest troubleshooting procedure.
Good luck--