Yes, CLI (command line interface) is the console version.
You have now two folder on your connected computer, in two seperate folders (F@H1 & F@H2) I assume.
Now just create a third folder (F@H3), copy the CLI exe file into it, start it, configure it (remember to give it a different ID than F@H1 & F@H2), let it download some work, wait till it starts crunching, stop it.
Put F@H3 along with the exportet registry key on your pendrive, go to the unconnected PC. There, import the exportet registry key into your registry (a double click shoudl do), cut & paste the F@H3 folder on that PC. Start the CLI and it should start crunching away. Once it's finished, bring the F@H3 folder back to your connected PC, start the CLI, let it send away the done work and catch some new work. Then, bring the F@H3 folder back to the unconnected PC and so on.
You only need to import the registry key once.
In order to send away the work the quickest, start the CLI of F@H3 with the "-send all" flag. That way, it'll instantly try to send the work and shut down again. Then restart the CLI (without the "-send all" flag) and it'll grab some new work.
The F@H3 console will tell you when it's finished. The service - as far as I know - won't. It'll just try to get a connection. But if you look into the F@H3 folder - once a WU is done - this one textfile - progress.txt / wuinfo.txt / or something like that, can't remember - will show 100% complete. So you know as well that it's finished.