Ionic Deploy with cordova-plugin-crypt-file

I am using the plugin cordoba-plugin-crypt-file which encrypts html and js files in the www folder when you perform a build (with an after_prepare hook). It then decrypts the files when the app is run.

Is there a way to upload the encrypted version of www folder using ionic deploy? Right now, if I use deploy, it breaks the app since it is trying to decrypt and unencrypted file. I can remove the plugin, but I like the extra step of encrypting my js files.