Unfortunately this is known as some kind of a “flagship problem”.
There is a discussion about workarounds here.
Whenever I run into clicks I use one of the following three options:
1. Use function + blue encoder (or was it the green one?) to move the recorded audio back and forth to hopefully find a better loop point but this could cause timing problems.
2. Lift the recorded audio and paste it to the sampler or the drum sampler to play with the attack, decay and release. But your looping time is limited to 6 or 12 seconds.
3. I think the best way to avoid this “flagship problem” is to keep the clicks and pops in mind and to adjust your playing/ programming at the end of each loop. In other words… the loop needs some space for silence.
If you find other possibilities… let me know.