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