pardon my ignorance (or lack of perhaps) but the texture merge tool with O2 allows you to merge multiple textures without any need for remapping, as it transfers the UV mapping with the merge.
have a read of jackal's experiences:
that would obviously remove the problem with having to remap everything, as it's not needed. But I know that at this stage I'm happy to accept a ported addon is always going to have issues with standards compared to arma... its a credit to RHS that the only major standard this falls short on is texture counts... the thing looks like it was made for ArmA.
nice work to all concerned. May this continue