Does flipping a bit in the ciphertext not flip the same bit in the plain text, for naive implementations?
Differential cryptanalysis is not about defending against bit-flips. Instead, it is about comparing two cipher texts to learn something about the relation between corresponding plain-text.
This is only possible on AES-CTR if you have to ciphertexts with the same key and nonce/IV. This is why a nonce is supposed to be used only once. Same goes for other xor based stream ciphers.