depending on the exact requirements a copy of the database of the already running system could save you a lot of work.
You throw away what you don't need and maybe make a few small changes to the things you need (e.g. the jobservers/agents).
But that's only a one time option. And without further information I can't tell if it is the right approach.
It might make the tedious task of transitioning job definitions from one system to another bearable though.
If this kind of tasks are expected to be more the rule than the exception just forget about this suggestion.
In that case I'd suggest a private chat (by e-mail).
Since the jobservers only know about a single schedulix server, you'll have to create another one that knows the new system.
It is no problem at all to have multiple agents running on a single host.
A jobserver is a piece of software with a pretty small footprint which I'd compare with a shell that is running.
I'm sorry I can't give you any better information right now.