It does seem to be the case that FLY pays more attention to status than keeping bookings together - my husband and I, both gold, have recently found that when booking together, we are as default split up and have to reunite our seats using MMB (haven't done an HBO recently so not sure if still a problem with that) but that also on a recent flight (both tickets booked together though ba.com on same PNR (about as simple as it gets)), my husband was upgraded to CE and I wasn't which isn't something we have seen before. The gate staff and cabin crew seemed relatively unsurprised at this (perhaps indicating that it is happening more?) as my husband voluntarily gave up his seat to sit with me.