Which MB do you have? If it's a 21', your tower will end up sitting just fine on the back deck. If you have the 23', things are a little trickier. You will end up with your tower light sitting right on the upper back edge of the rear seat. We just put a big foam pad there so the tower rests nicely on the pad without digging in to the seat. Do you have speakers on your tower? If you do, the tower is definitely a learned process, but without speakers you can raise and lower the tower, just like they show on the MB website, in the video. It really is that easy.
We do tow for short distances with the bow filler, and the wind dam in place, and no cover. If we're going long distances, we'll just put the cover on, and still leave the filler, and dam in place.
We also "hang" the bimini from the underside of the tower, but we do take it off if we're going long distances at freeway speeds.
Don't want to get involved in the weighting issues. Everyone has their own recipe. I'd say the many ideas on the other threads are a great start.
Enjoy the boat. They're fantastic.