A few things; the Barnacle Buster is going to be exponentially stronger than vinegar, no need to bother with the vinegar. After you're done with the chemical flush, flush the heck out of it with clean water to get all the chemicals out, you don't want to leave that sitting in there.
To flush; just remove the lower unit, remove the thermostat and pump water into the water feed tube that normally goes to the water pump. That will get water everywhere it needs to go. If you got water in the motor, the most important thing is to get it out before anything rusts. Change the oil (any water will be sitting at the bottom of the pan) then run it on the hose or the boat long enough to get the oil hot for a while so any remaining moisture steams off, then you should be good.
To flush; just remove the lower unit, remove the thermostat and pump water into the water feed tube that normally goes to the water pump. That will get water everywhere it needs to go. If you got water in the motor, the most important thing is to get it out before anything rusts. Change the oil (any water will be sitting at the bottom of the pan) then run it on the hose or the boat long enough to get the oil hot for a while so any remaining moisture steams off, then you should be good.