The screws on the bridge are for action height, so affect intonation, but the screws next to the string ends on the bridge are what adjust the saddle position along the string, and also affect intonation. I managed to set up my own Cort B5FL after having tapewound rotosound 88's fitted. The guy in the shop fitted the string, and dropped the action as low as it would go. Later I played with the saddle position to ensure the intonation of open ant 12th fret were aligned using a decent tuner (korg pitchblack). I set the harmonic directly between the dots on the 12th first. This involved bringing the saddles right back to the bridge for the B and E string, but it just about worked. However later I adjusted it so the harmonic on the 12th is aligned to the left dot. This allows me to compensate for the alignment / stretch issues when playing. Hope that helps.
Experienced bassist picked up my bass the other day and commented on how well it was set up. Its my first bass, feels so comfy, plays to my liking and I love it. Hail the Cort - I only paid £199 sterling.