Quick guide to get you started:
The quest is 'save humanity, contact aliens races, defeat the ur-quan hierarchy'. You do have one, just no clear starting point.
But if you've been to pluto, you do have a good starting point. Fwiffo, despite being the escort ship most frequently used by starcon players everywhere to kill just about anything, is a complete coward, and if you paid attention, he told you the exact co-ordinates of his homeworld, and the super-secret cypher. Go talk to the spathi, and interrogate them for every useful piece of information they possess, and do their little quest. Should give you some additional places to look.
Afterwards, enough time should've passed that the starbase commander should have recieved information that he'll give you upon your return to earth. That should start the ZFP path, or give you a hint to where to meet the alien traders.
If at any point you find yourself completely out of things that seem to need doing, go buy information from those alien traders - they're so well informed, they're very close to omniscient.
Cheers, and good luck. Oh, and don't expect to win the first time - it's quite common for the first playthough to end....badly.
Yes, I have been to Pluto, actually..

That little guy was freaky.. and I sold him off for the RUs. *blush*
I've talked to the ZFP's, and see their sphere of influence, as well as the Ilwrath's (impossible to kill with the flagship!), and the Spathi's. So I suppose I should be heading there (a year after I start.. whoops).
One thing this screwing around has done for me, though, is given me a decked out flagship.. hee.. Four ion cannons, three fuel pods, two crew bays, two dynamo's, and three storage bays.
Yeah, cookies in solar systems..
