We recently got back from WL and chose it in part based on the transportation options. I love having the option of the boats to MK and Fort Wilderness. During our recent stay (which was during a very low crowd time in September) we frequently rode the boats to MK, FW, and the Contemporary. While they are a fun and beautiful option, they were usually not any faster than busses would have been. It usually took about 30-40 min to get from the room to the front of MK, including approximately a 10 minute wait for a boat. The MK bus ride was only 5 minutes, and it didn't seem the waits for those busses were too bad.
The Contemporary was about a 5 minute ride away after waiting for a boat to arrive, and from there you can go into the lobby and up to the Monorail, which is how we went to Epcot (by transferring monorails at the TTC).
To get to the Grand Floridian, two options are boat to Contemporary and then Monorail to GF, or boat to MK and then another boat to GF. Either way you probably want to allow yourself 45 minutes to an hour.
For Fort Wilderness, it is about a 10 minute boat ride compared to a 5 minute bus ride. We did both and preferred the boat just because it was prettier and more fun.
The busses everywhere else were fine for us. We sometimes had to wait up to 25 minutes for a bus to show up but when it did we got right on and it was usually only shared with one other resort (usually the Grand Floridian) for DTD, AK or HS. Having the option of the bus to/from Epcot was nice, which the monorail resorts do not have. We usually tended to go to Epcot via the boat and monorail, but would return home via the bus which was about a 15 minute trip with WL as the first stop, then continuing on to FW.
Overall we enjoyed having all the options, and used the boats a lot, but the busses were probably the quicker option.