Not good. This has been reported previously. Perhaps need to ask the mnufacturer.
Possibly as the scenarios suggested above, but I doubt it.
Correct dose should not affect the brood, high varroa load or not. Open brood will not be yet affected by varroa infestation - unless at the point of capping. The box size here should not be an issue - maybe for a deep brood, but not a brood and a half as that is on a par with a Langstroth.
The most likely, IMO, is separation in storage - the thymol is concentrating somehow. If it is, then the other end of the bucket would be depleted of thymol and the scenario would then be one of low efficacy. Not good.
A search of the forum archives may bring up the previous postings. I believe there to have been more than one.
The pertinent questions to ask are whether separation is possible, the storage time between manufacture and use-by date, why did this occur, what they intend to do about it. There may be others. Pointing out there have been earlier reports of this problem may avoid them telling you it has never happened to anyone else!
I, too, use thymol of my own preparation. I have never experienced wholesale loss of brood and generally get good efficacy. I dose at the standard rate into 14 x 12s and add further if limited bearding does not occur. I also take into account the weather, if particularly too hot or cool, at the dosing stages.
This stuff is marketed in widely varying climates, so should have been tested at the temperature limits long ago. Too late, now to remove some, I would suggest. The damage has been done. If all the brood has been outed, likely all the varroa are dead by now, or will be very shortly, so the treatment can soon be terminated. The queen will almost certainly be off-lay by now. No need in for oxalic, or any other treatment at the current time. If capped brood is still there, there will yet be varroa emerging from cells, which oxalic will not kill.
I generally only treat with thymol and that has been adequate for the last several years, to allow 'clean' winter bees to be raised.
RAB