Ok, back. It is easier to try to examine the clicks one at a time. So in
priority order, is this correct:

1) The biggest clicks are fixed by the patch in comment #71

2) To second click needs these two to fix:
+ snd_hda_codec_set_power_to_all(codec, fg, power_state, false);
when transitioning to D3 set eapd_workaround to false because we need to power 
down the widget - Speaker 0x10, if it's not set it causes the initial click 
noise
+ .set_power_state = conexant_set_power,
use conexant power settings for auto model

3) For the soft click when powering up, have you tried anything between
10 and 75 to see if that also resolves the click? I'm thinking that we
should not set a higher latency than absolutely necessary. (And I agree
that 300 would likely be too much, better live with the recorded click.)

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https://bugs.launchpad.net/bugs/886975

Title:
  [Thinkpad R61i/T61] Lenovo sound chip Conexant CX20549 Venice doesn't
  work correctly.

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