Absolutely the same issue here - with almost full SuperSim moved out in a new game save. Game repaired 3 times.I even started the game without the JTB pack, then enabled it and the issue is present again. (no kits, no Paranormal or Dream Home, no mods and no CC).
What happens in my new-save-game with this sim:
First mission is every time a Resistance mission as part of the 'Hope vs Order' aspiration. Always talking to Vi Morandi first (as she is pretty much the only one available when I go to Resistance hideout). Then the second Sim that shows up gives the mission (Leap of Faith) via Ignite the spark. No indication icon above their head is showing up (I had to click all the sims to see who was the one giving missions). Mission complete (work tasks) and stays yellow, Report back is disabled on all Resistance contacts.
What I did:
Started New game, new sim. Went directly to Batuu - absolutely the same steps as above. As soon as I completed the tasks, before reporting back I got a selection screen - who will I support Resistance or First order. This has not happened with my SuperSim. That choice never showed up before.
Aspiration tier completed and next one loaded up. Went to Resistance hideout to report. My 'mission 'sim' had an Icon above their head 🙂 Successfully reported back, mission completed, credits awarded, item received in inventory.
What I thought of:
The only difference for the Super Sim related to JTB is that their father was actually the quest giver for the resistance. Nonetheless I added him to my household hoping that he will drop that role as soon as he is 'actively played' Sim, not a random NPC. Eventually my Super Sim was spawned 😉 I suspect that having a former-JTB NPC in the household might have broken the JTB chain for my sim.
What I decided to do next:
So I went to the save where the SuperSim was still living with his parents. (6Gen family, GrandMommaSim had 0 troubles completing JTB everything, so it is a fairly recent update) To my surprise daddy no longer had a JTB chat option (though I have not touched that save). So went to Batuu, bought some food went to change outfit, blue screen started loading CAS ... and then I got back into the Black Spire Outpost (never made it to CAS) The sim I travelled with went 100% unselectable, but when I unpaused he started moving around. He only had the tiny house icon with * 'Go to the Cantina'. He did not go to the Cantina - he was in there already. So I switched to another household member and then switched back to my Sim. Aspiration was no longer applied (he got a new one). Aspiration was marked as completed (had a star), but the Sim did not had the trait 'A Gift of Credit' for completing it. Welcome to Batuu 'work' tasks were no longer there. He got completely reset on his JTB tasks and aspiration.
So I completed the Aspiration again. Went to say 'Sul Sul' to Vi Morandi and Rey was there with the Resistance icon glowing over her head. Of course he said 'Sul Sul' to Rey (he is a Super Sim and very polite). Got the mission, got the tasks. Off to the First district order to check out their ship and crates. Mission completed, pop-up asked me who I want to support. Met with the NPC to report to 'Sul' Sul', haven't even reported back yet and Aspiration was complete thus unlocking the other 2 aspirations. But no Trait was awarded to my sim.
So I Reported back (it was enabled this time). And Reported back. And ... multiple times. Task was complete - mission - not.
Where am I right now:
Still stuck.