This method sucks, but I've left it here for reference so others avoid this path:
Using Option 1 from @ninjagecko worked best for me:
Array.prototype.equals = function(array) {
return array instanceof Array && JSON.stringify(this) === JSON.stringify(array) ;
}
a = [1, [2, 3]]
a.equals([[1, 2], 3]) // false
a.equals([1, [2, 3]]) // true
It will also handle the null and undefined case, since we're adding this to the prototype of array and checking that the other argument is also an array.