There isn't any evidence to support that corn snakes are territorial. In fact there are keepers who keep successfully more than one in a cage (although that's not recommended for a variety of reasons).

The more likley reason for snakes to poop after a cage cleaning is that snakes spend most of their time doing nothing. When they are removed from their cage for a cleaning and crawl around a bit, this "loosens them up" and cases them to defecate. The same thing would happen if you handled a snake for 30-40 minutes - there's a good chance that you'd get pooped on.

Tim

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