The bad cells could have been damaged if the batteries were dropped maybe before you bought them), who knows. Doubt had anything to do with the trickle charger, but you can check its voltage too, same way--use your voltmeter on its clamps
You plug in the RV and that should power up the WFCO, but it needs 120v not lower than 105v so if on a long cord from the house check the 120v value in the RV when the WFCO is running.
You measure the converter's voltage with your voltmeter- best place is at the converter's terminals, but when installed you can use the "battery wire lugs" on the DC fuse panel- easier to get at. You can use the wire ends that go on the battery too. Should be 13.6ish. You said it was 14.65? What is it now? Guys here can say what's what depending on the answer.
You want a 35a converter to go in there although a higher amp would charge those 6s faster and not mean so long of a gen run time. BUT the RV wiring and fuses are for 35 amps so stick with that. BUT if you do want faster charging and less gen time to get those 6s recharged off grid you can do that with a different battery charger that has higher amps that you can take along. You don't have to recharge with just the WFCO.
PowerMax and PD make replacement lower portion "MBAs" for the WFCO if it turns out you need a new converter. If you can't get one in time for the upcoming trip, you don't need to use the WFCO at all so no panic.
You can operate on battery and use a portable charger with the gen to recharge the batts as needed. BTW the pair of 6s will easily take 60 amps charging but it is hard to find a typical charger with that many amps. So you could buy a 60 amp deck mount converter and use that as your portable charger--but the generator has to be able to run that. Needs a 2000 not a 1000.
So you are all set whatever shape the WFCO is in.
To look for a mystery draw, turn off the charger. See what amps are being pulled. Then take out each fuse in the DC panel one at a time and note the amps draw each time. Note some draws are not fused at the panel. Slides and jacks and radio and LP alarm normally from the battery directly so to capture all the amps use the neg battery to frame "ground" wire. Unless there are other load neg wires to check on the neg battery post Or use each individual pos wire to the battery.