I am no expert but I did just pull and reinstall my motor.
My advice would be to pull the motor by itself. It's pretty tight going in and out so I think that the addition of the trans would just add difficulty to it. It's just that much more weight and things that you have to watch out for going in and out. So I think that the trans would make it even tighter front to back with the radiator in and the downpipe there.
Once I had the motor out I put a support across to hold the trans. Then I was able to push the car in and out of the garage as needed.
I can say that this site has a lot of info on the job and the job really isn't that bad. You just have to be kind of creative in your searching because some of the best info does not pop up from just putting in something like "pulling motor".
good luck.
