Other than the main Campaign (link) and a variety of different 'generic' missions, X:Rebirth contains a number of unique or rare, side quests.
Base game:
- Treasure hunts (link)
- Craft: Rare Engine (loot drops; repeatable)
- Craft: Rare Weapon (loot drops; repeatable)
- Craft: Unique Shields (unique, occasionally some fragile components)
- Craft: SETA (4.00 beta; loot drops)
- Craft: Jumpdrive (4.00 beta; mission chain)
- Operation Forge Guard
...
- Another Gate Open (triggered after travel into one of the base vanilla game's systems, after Campaign is completed if that's your start).
- Xenon Invasion (major mission following on from a Ship in Distress generic mission).