Hiya Ariel!
We've split our stay for our last two visits to WDW, and it was no big deal (once between WL/YC and last time WL/AKL). Bell Services takes your luggage over to the next resort, and you just check in whenever it's convenient for you -- after breakfast, after touring a park for a half day, or whatever.
It's a great way to experience two resorts in a limited time. We only get to WDW every two years or so, so it would take forever that way to try ALL the resorts -- so two for one is a real cool concept
We love WL as a home away from home, so we always stay there for the first part our stay, to welcome us back. We plan dinner at one of the MK resorts (other than WL), then do the monorail and catch the water pageant and fireworks that night. Bright and early in the AM, we take the launch over to MK and spend the whole day there.
The only drawback that we saw to the AKL was having to drive to all the other resorts. YC was great in its proximity to MGM and Epcot. Wish AKL would have a "backdoor" installed to their sister park
Anyway, hope this helps! Have a great time regardless!!