Split stays between WDW resorts can be pretty simple to navigate. First, realize you're not going to have access to a room from mid to late morning until perhaps 4/5pm in the afternoon/evening. If there's anything you might need during the day, keep it with you. If you do not have a car (or even if you do), bell services at AKL will collect your bags in the morning and will get them transported to your next resort later in the day. I'd recommend you do online check-in at your second resort. That way, you'll know when the room is ready. You should get your actual room number and go right to the room later in the day. We normally call bell and have them bring our bags directly to the room. You can also stop by the lobby and pick them up yourself at the new resort. The latest we have gotten our bags at the new resort is about 5PM, usually earlier.
I hope that helps a bit! BTW - we highly recommend a couple nights at AKL - awesome resort!