The large boat from the Wilderness Lodge to the Magic Kingdom is accessible and can take scooters.
The small boat from the Wilderness Lodge to the Magic Kingdom cannot take scooters.
The small boat that goes WL/Contemp/FW cannot take scooters.
There is a bus that goes from WL to Magic Kingdom.
There is a bus that goes from WL to Fort Wilderness.
There is also a very nice walkway between WL and Fort Wilderness. Not lit at night, but a very nice way to see lots of deer and other wildlife early in the morning.