So, how far is "3 jumps"? In a starter Sidey, that would be 19 ly, in a exploconda, 180 ly.
There is an independent system with outfitters 103 ly from Ceos, Almagest. You could go there and refit your ship for the trip to an IF. Or, if you have one, have a travel capable ship transferred to the shipyard there.
If your range is at least 60 ly, you could consider calling the Fuel Rats and ask them if they were willing to do a refuel on your way.
Of course, you can always self destruct - but at the moment, there seem to be a few problems with that, judging from the bug reports, so I wouldn't really recommend it.
Final (at the moment) idea - switch to "economic routes". Might be enough to get you to Almagest on your own.
...I'm sure this wasn't kind of situation wasn't thought of in the new CnP system.
I wouldn't be too sure about that. Ceos-Sothis has been considered borderline for quite some time. So if the side effects of C&P drive up the risk of working there, I'm all for it. TANSTAAFL.