We were a little freaked ourselves about the alligators last week in the waterways next to Frontierland. There were two that we saw together, but we think there are three total -- we saw one that was about 2 1/2 feet long and the other was about 4 feet long -- but people were talking about a third one as well. People were feeding them, which is the main reason they're staying in the park areas. Alligators do not USUALLY stay in the park areas because of all the people -- and there's usually only one that sort of "gets lost" in the park -- but if they stay long enough to get used to being fed, it's hard for Disney to get them out and they tend not to leave on their own. And it is somewhat unusual to have several out and visible at the same time with all the guests around.
We have family in security and retail management at MK and both said the same thing -- Disney doesn't want to try getting them out during the day when guests are in the parks, and at night, they can't seem to find them, so unless they see them as a danger, they're just leaving them alone. We did watch the bigger one following the raft back and forth to the island. It was a little creepy.
And just to clarify (or actually to ask), someone stated earlier that all of the waterways at Disney are connected in someway. I didn't think this was the case. The ones by MK are connected and the ones by Epcot/MGM are connected, but those two sets never come together. Is that right?