Yes, you can run multiple instances of the Rublon Authentication Proxy within one installation.

View this configuration example that has defined two instances, one on port 1812 and the second one on port 18120.

Note that you have to enter a System Token and Secret Key for each server instance, hence this is how you can use separate Applications from different Admin Consoles within one installation of the Rublon Auth Proxy.

Helpful Links

Rublon Authentication Proxy - Configuration Example