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