I agree the Shadow run games are more RPG light, but i really enjoyed the stories, especially in Dragonfall.
Also IMO it really captures the Shadowrun feeling well, at least what i remember of it, I haven't played Shadowrun PnP in years though.
I've never played the PnP version, but I've enjoyed what I've seen so far of the setting and lore. I'd love to see a AAA crpg based on it. Something in first or third person with a deep single-player campaign and open-world gameplay.