Just to be a little more specific (as it appears I still may not have correctly diagnosed the problem), the 3rd-party libraries' methods are returning 'undefined' when called.
For example, I have loaded in the chosen.js libarary. When calling via console, this:
$("select").not("#editor_selection, #lang").chosen()
yields:
TypeError: Object [object Object] has no method 'chosen'
- arguments: Array[2]
- get message: function () { [native code] }
- get stack: function () { [native code] }
- set message: function () { [native code] }
- set stack: function () { [native code] }
- type: "undefined_method"
- __proto__: Error
Once again, this problem only occurs when in the view of a component which uses jQuery.
Thanks for any help.