Now that I've installed Knossos, I've been giving SA a run-through, and I'm on the ISF branch right now. I'm up to mission 5 (I'd tell you the mission title but it doesn't say it because of the Red Alert), and I can't progress beyond it.
I manage to scan all targets up to the time when I get the warning about Arjuna wing, by which point I've only got a Moloch and the Byrn corvettes left to scan. I make a run back to the AWACS, get Arjuna in close and then engage and destroy them. I get the warning about one trying to escape the jamming field but I get it before it does. Then I go back and scan the remaining two ships. On one attempt I finished the scans and got a message telling me to draw Arjuna into range of the AWACS, but I'd already destroyed them. I withdrew to the AWACS anyway, but got no further directives so I jumped back to base, but got the "no authorization" debriefing and had to repeat.
More recently, I got to the same spot, but since I had already gotten within 1500m of the AWACS earlier in the mission I didn't get the same message. After scanning all warships I decided to scan all cargo as well, then for the hell of it I scanned the remaining subsystems of the Ravana, but some of the fighters got close enough so I got unprotected. I decided to have a little more fun, so I drew them outside the weapons range of the warships, then engaged and destroyed all the fighters that were chasing me, then doubled back and attacked the freighters, and even took out one of the Rakshassa cruisers. I was moving in on another when I got within range of the Demon's flak and decided to call it quits and headed out of range before jumping. The debriefing indicated that I'd failed to stop Arjuna from escaping the ESD field and can't proceed to the next mission. I conclude that there is some form of sequencing error to be looked at.
Also, the proximity tracker seems to be not working properly. It often tracks fighters that are 3k away, while ignoring ones that are much closer.
Which file are you after? One in specific, or all of them?
On another note, you may want to make some more anti-TrivialPsychic-kill-all changes to "Daddy Long-legs" to make sure no-one can destroy the Aracnas. Here's my gameplay sequence:
Load Sekhmet with Proms, one bank Trebs, 2x banks Helios
Step 1 - Order Alpha to destroy the corvette.
Step 2 - Disable Gas minder with 1x Helios
Step 3 - Disable Corvette with 2x Helios
Step 4 - Head to Rakshasa cruiser and disable with 1x Helios. This will cause heavy damage to the freighter, but you have to get in real close before you launch
Step 5 - Destroy freighter with a quick barrage of Proms
Step 6 - Use 2x Trebs to take-out AAA stinger turret of Lilith
Step 7 - Use 2x Helios to disable Lilith
Step 8 - If Corvette is destroyed, destroy AAA stinger turret of Cain once it arrives
Step 9 - Call for rearm, and assign a wing to protect the support ship.
Step 10 - Try to keep as many surviving fighters around to protect you, and give them all orders to ignore the station
Step 11 - Disable Cain with 1x Helios.
Step 12 - Pull all fighters and the support ship out of flak range and weapons range of all other ships and destroy subsequent waves of fighters until they stop
Step 13 - Use repeated Trebs to snipe off defensive turrets of station and of any other capital ships. DO NOT DESTROY ANY BFRed TURRETS!
Step 14 - Use repeated Helios and Treb attacks to bring station damage down to about 7%.
Step 15 - Use 2X Helios combined with Trebs and primaries to bring each BFRed turret down to 1% strength.
Step 16 - Destroy remaining capital ships.
Step 17 - Rearm and use 1X treb on 2 of the station's turrets, then close and destroy the station with a few salvos of twin Helios.
Step 18 - Either evade or destroy wing of Gorgons that will have been launched once two of the BFRed turrets are destroyed.
I made it as far as Step 15, but was planning on destroying the cap-ships after, and instead tried to snipe off all of the BFRed turrets first, but my escort jumped and with 25% hull strength I couldn't hold out against the Gorgons on my own and I got shot down before I could destroy the station. In any case, a ship-guardian-theshold on the station is probably in order.