I suspect that it's a factor of travel time as well, so that 1:00 at 3m would easily be explained by that. The 0:18 at 6m has me a little flummoxed though. It is an interesting theory exercise, but in practice this would be one of those "measure with a micrometer, mark with chalk and cut with an axe" kind of things. A minute or two on planning software washes out in the noise of an actual dive pretty fast.
As to the OP, If I can run a plan within a team where we all end up within 2 min of each other on all the important stops, I would be happy. In real life, we are going to sit at each stop until the last computer on the last diver has cleared anyway, for me the major utility of these plans is for establishing gas requirements and having a "get out of jail free" plan for if everything goes sideways. In those cases, unless both your computers died at exactly the same time, RIGHT at the end of your planned BT, whatever tables you have in your wetnotes are going to be conservative anyway.