Yes, I've done all trophy quests again, and the trophies did pop up. So in this way its at least possible to unlock the trophies.
Also after trying a little, some trophies that doesn't pop whatever I try:
Race Ace (Complete all of the K-Drive races in Orb Vallis.)
Ride or Die (Reach top standing with Ventkids.)
Money Can't Buy Happiness (Reach top standing with Solaris United.)
Some Assembly Required (Assemble a Railjack)
And when I logged on PC, my progress towards the Revive 1000 allies achievement was 0 again, really frustrating