There are a few issues related to the Streaming API wrapper in jsforce:
https://github.com/jsforce/jsforce/issues?q=is%3Aopen+is%3Aissue+label%3Aarea%3Astreaming

The faye library we use for the streaming client seems abandoned:
https://www.npmjs.com/package/faye

Instead of working around faye it might be better to find an alternative that allows a better support for the Streaming API and jsforce's features (mostly allow to refresh expired tokens without losing the connection).

Alternatively, would adding support for the Pub/Sub API cover usage of the Streaming API in your project?
https://developer.salesforce.com/docs/platform/pub-sub-api/overview