Here is the full list of all 99 Time Clickers achievements. It takes around 200 hours to unlock all of the achievements on Windows.
Defeat Wave 4,000 Boss
Beat Wave 3,500
Collect 3.00M Weapon Cubes
Time Warp 250 Times
Beat Wave 3,000
Defeat Wave 3,000 Boss
Get a Team Member to Spec Ops 5 (LVL 5,000)
Collect 5.00M Time Cubes
Beat Wave 2,750
Upgrade a Team Member 25.0K Times
Beat Wave 2,450
Time Warp 100 Times
Get a Team Member to Spec Ops 4 (LVL 4,000)
Beat Wave 2,150
Upgrade a Team Member 12.5K Times
Defeat Wave 2,000 Boss
Destroy 1,000 Rainbow Balls
Destroy 75.0M Cubes
Beat Wave 1,850
Time Warp 50 Times
Beat Wave 1,550
Get a Team Member to Spec Ops 3 (LVL 3,000)
Destroy 50.0M Cubes
Beat Wave 1,350
Beat Wave 1,150
Defeat Wave 1,000 Boss
Beat Wave 950
Beat Wave 750
Get a Team Member to Spec Ops 2 (LVL 2,000)
Collect 1.00t Gold (Total)
Destroy 1.50M Yellow Cubes
Beat Wave 550
Upgrade a Team Member 5.00K Times
Time Warp 25 Times
Upgrade a Team Member 2.00K Times
Destroy 5.00M Cubes
Time Warp 10 Times
Destroy 1.00M White Cubes
Destroy 150K Yellow Cubes
Collect 1.00r Gold (Total)
Destroy 500K Red Cubes
Defeat Wave 500 Boss
Destroy 500K Cubes
Time Warp 5 Times
Beat Wave 350
Defeat Wave 250 Boss
Upgrade a Team Member 500 Times
Beat Wave 200
Get a Team Member to Spec Ops 1 (LVL 1,000)
Get Team DPS to 10.0f
Get Team DPS to 10.0e
Get Team DPS to 10.0d
Collect 1.00p Gold (Total)
Earn 50.0e Gold
Collect 999g Gold (Total)
Collect 999i Gold (Total)
Collect 1.00l Gold (Total)
Collect 1.00n Gold (Total)
Collect 999e Gold (Total)
Destroy 100K White Cubes
Time Warp 3 Times
Destroy 5,000 Rainbow Cubes
Get Team DPS to 10.0c
Collect 1.00d Gold (Total)
Destroy 50.0K Red Cubes
Shoot Click Pistol 250K Times
Time Warp 1 Time
Get 10.0K Critical Strikes
Get Team DPS to 10.0b
Upgrade a Team Member 125 Times
Destroy 50.0K Cubes
Defeat Wave 100 Boss
Beat Wave 100
Earn 250a Gold
Get Team DPS to 10.0a
Get Team DPS to 10.0Q
Shoot Click Pistol 100K Times
Collect 1.00Q Gold (Total)
Get Team DPS to 10.0T
Earn 5.00T Gold
Upgrade a Team Member 50 Times
Beat Wave 50
Get Team DPS to 10.0B
Get 1.00K Critical Strikes
Shoot Click Pistol 50.0K Times
Collect 1.00B Gold (Total)
Upgrade a Team Member 25 Times
Get Team DPS to 10.0M
Get 100 Critical Strikes
Beat Wave 25
Shoot Click Pistol 10.0K Times
Earn 500K Gold
Collect 1.00M Gold (Total)
Destroy 5.00K Cubes
Upgrade a Team Member 5 Times
Beat Wave 10
Shoot Click Pistol 1.00K Times
Shoot Click Pistol 500 Times
Shoot Click Pistol 100 Times