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