You're not being complicated at all. I don't blame you for wanting to plan ahead and get all your facts straight
A few things to remember...
1) If you plan on park hopping, you can take a bus directly from park to park...very easy.
2) Remember to give yourself enough time to go through the bag check point once you get to the park. Sometimes this can take a while depending on crowds. While 30 minutes is ample time, there will be LOTS of people ahead of you.
3) Are you renting a golf cart or not? If not, you will have to take an internal bus to the boat docks and the main bus stop at the front.
4) MK - the boat is a great option! If you drive, you have to park far away then either take a boat OR the monorail to get to the park. I always play it safe...just me, but I would give my self and hour from the time you step out of your cabin until the time you step off the boat at the MK. You might get lucky and there'll be a boat waiting OR you might have to wait 20 minutes for one to arrive.
5) EP - I know that the bus comes from the WL first, and sometimes can be full before it even gets to the Fort. We've driven to EP and got there an hour early (dining ressie) We were literally the 3rd car in the parking lot, and the actual walk to the park was short. Driving here might be a quick option.
6) AK - I believe this is a direct bus ride from the Fort.
7) DHS - Direct bus ride, also. We've driven to this park also, but find it easier to just catch the bus since they drop off much closer.
The buses can be hit or miss at any resort no matter the value, mod, or deluxe. My husband almost refuses to drive anywhere. He says we're paying Disney to transport us and we'll use their gas.

And for our family, it is nice knowing we don't have to get in a hot car and drive ourselves back. Guess it's just boils down to what is comfortable for your family.
If you have any other questions, fire away

I'm a huge planner, so I understand wanting to have all your facts upfront.