Jacob,
I have seen no change in behavior in ANY of these versions of PX1 that keep coming out.
AGAIN, here's what happens.  Uninstall, reboot, install new latest BETA, reboot, PX1 starts.  I fire up Furmark as it's a quick test (games will do the same).
Fans 2 and 3 fail to spin up until GPU hits and holds at or past 85 degrees.
Fans 2 and 3 should start spinning up once the GPU hits 55 degrees.  This is a horrible problem.  While the GPU is running at or past 85 degrees, the 2 memory banks are at or over 95 degrees!
 
It seems like once the GPU is over 85 degrees for longer than 30sec or so, fans 2 and 3 finally spin up and immediately the GPU temp drops down to the 60's.
The AUTO setting in PX1 needs to be fixed to spin fans 2 and 3 up @ 55 degrees.
The link fan icon has no effect and resets if PX1 gets closed - there's no way to have it persist, yet it does nothing anyway.
What do we have to do to get this PX1 software fixed?  The reputation of it is downright embarrassing all over the internet tech forums. 
Everybody knows it's some of the most awful software there is, YET ITS REQUIRED IF YOU HAVE AN ICX2 CARD WITH 3 FANS!!!!
FIX IT!!!!!!!

I link my fans in addition to a custom fan curve, I prefer them cooling the entire surface of the fins.  But with an additional fan on the card, likely not a good idea.

jinihammerer
I link my fans in addition to a custom fan curve, I prefer them cooling the entire surface of the fins.  But with an additional fan on the card, likely not a good idea.

I haven't found cause to run the three card fans at anything other than sync'd myself, just noticed my unlinked state via your commentary.  Would have saved me some time while establishing my steps if linking/chaining/whatever them together would have enabled single graph adjustment.  I am not sure if this is what would happen and pretty sure it wasn't what you were saying.  In PXOC with the 1080 Ti I just set all three manually so that behavior followed on through to PX1.
 
I have tested with the 1080 ti ftw3 and to a much lesser extent with the 2080 Ti playing with fan 3 being a different speed than 1 & 2.  The only difference it makes is an increase (slight, very slight) of temps proportional to the reduction of fan 3 speed.  The net cooling effectiveness of fan 3 is unaffected in my observation with either card  having the top quarter of an NF-A12x25 fan as an intake for the case blowing directly into the open end of HSF assembly.  I even fabbed up a cap to close the end of the 1080ti so as to block off the case intake fan's flow into the open end of the 1080 ti's heat fins and direct towards the inlet side of the card's HSF.  It didn't change my temperatures one measurable bit and I am not even going to bother with the 2080 ti.

Good and common sense practice from what I have observed and inferred.
 
Although I hate AIO pump noise, I am thinking if EVGA sells a separate AIO cooler for this card like they did with the 1080 Ti cards I am going to pick it up if for no other reason than my card's memory seems quite sensitive to temperatures above 75c when offset higher than +650.  Hopefully, like the 1080 Ti solutions, a future hybrid cooling kit will put the GPU block's copper in direct contact with the memory modules.

 
This is what i get whenever I reboot.  "Enable Automatic Control" on the user define curves page is unchecked despite being shut down with it enabled.    Also, any time I adjust the core offset and apply it "Enable Automatic Control" is unchecked if I am not on the first page of the custom fan curve (with three configurable graphs and the Enable Automatic Control check box). When it unchecks, fans 2 and 3 remain spinning on the curve set by PX1 and do not turn off like they are when Windows is rebooted.
 
Hope this helps the PX1 team.  Also, I am running the card with the Vbios selector switch in "OC" mode.  It would be nice if I could at least save my fan curve(s)/if PX1 would at least remember my custom curves after reboot.

Can you click the i (info) button and take a screenshot?