If you don't have too many carryons and/or don't mind taking them with you to Animal Kingdom Lodge, I don't see why you couldn't ask them to drop you at AKL instead of CSR.
After you finish your meal at Boma, you could then grab a quick bus to Animal Kingdom, then a bus over to CSR and check in.
I was really tempted to try this my last trip. I had no carryon. I thought about asking to be dropped off at one of the Epcot resorts and just walk over to Epcot instead of checking in, but it would have been after 1am before I got back over to POP, and I wanted my resort ID, so I went to Pop first.
(Edited to note, I see that someone else suggested the above).
Another suggestion, if they insist on transporting you to CSR instead of AKL, then once you arrive at CSR, drop your carryons with Bell Services and skip the checkin line and head straight for the Animal Kingdom bus.
Carol