| Trophy | How to unlock |
| 88 MPH (Bronze) | Defeat General Azimuth and save the universe.
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| Apogee Explorer (Bronze) | Find the Obsidian Eye.
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| Insomniac (Bronze) | Visit the Insomniac Museum.
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| It Belongs in a Museum (Bronze) | Retrieve Chief Zahn's Zoni Vessel.
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| Junior Caretaker (Bronze) | Defeat the Hypersonic Brainwave Scrambler.
|
| Just Like Old Times (Bronze) | Reunite with Clank.
|
| Leave no Lombax Behind (Bronze) | Save General Azimuth from Lord Vorselon's clutches.
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| Paradox Hero (Bronze) | Confront Dr. Nefarious in the past.
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| Party Crasher (Bronze) | Destroy Dr. Nefarious' armada.
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| Revenge of the Squishy (Bronze) | Defeat Dr. Nefarious.
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| Rude Awakening (Bronze) | Complete Great Clock, Sector One.
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| Savior of Axiom City (Bronze) | Destroy the VX-99.
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| Senior Caretaker (Bronze) | Repair temporal damage caused by Dr. Nefarious.
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| Somebody Call For Backup? (Bronze) | Stop the Agorians from destroying Gimlick Valley.
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| Terraklon Assassin (Gold) | Vanquish Lord Vorselon.
|
| The General's Pupil (Bronze) | Master the hoverboots.
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| Time Keeper (Bronze) | Unlock the Orvus Chamber.
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