UPDATE Jan 30: EK got back to me after seeing this thread and confirmed it's a design flaw with the pump top that is causing this. See their email here (great customer support by the way, even after 4.5 years!). Also, I'm now almost sure that the black stuff is just graphite dust from the impeller which was worn out. Others in the thread thought so too.
EDIT: tl;dr: some component in the loop is consistently turning my clear coolant black and has killed two D5 pumps in exactly the same way: the impeller's top part that sits on the ceramic baall is wearing out and eventually recedes into the pump body, scratching it (i now got a 3rd new pump). Possible causes:
- design flaw/fault of the old EKWB D5 pump top, resulting in the impeller being pressed (I have the 1st top version, EKWB released Rev2 then discontinued it)
- the Tygon norprene tubing (very rubbery)
- the nickel plating on the cpu block
- less likely: rad, fittings
details:
In August 2012 I built a loop with clear EKWB coolant, EKWB EK-Supremacy Full Nickel CPU block, EKWB nickel plated fittings (all of them, some black nickel, some normal nickel), a Laing D5 pump, the EKWB D5 black acetal pump top, a Phobya G-changer full copper 420 rad, and some cheap Masterkleer tubing (big mistake this one).
After 2-3 years of no _apparent_ problems, I discover that my temps were getting higher and higher. Opening the CPU block I see that the tubing leaked so much plasticizer that it clogged the CPU block. Long story short, I took everything apart, cleaned it very carefully and tediously, including fittings, washed and flushed the rad several times over several days (used soap, then also part vinegar solution), removed all plasticizer carefully from the CPU block fins, and I also applied some metal polish cream to the CPU block *as recommended by EKWB* for nickel plated blocks (I used T-Cut Original Metal Polish - which says it's suitable for all applications, including automotive and marine). From the EKWB website: "EK recommends the use of automotive soft, non-abrasive metal polish creams. After you finish using other cleaning methods, give the nickel plating a good polish with a non-abrasive metal or chrome polish."
I still don't know if applying the metal polish was a mistake or not ... anyway, I replaced all tubing with Norprene tubing (the Tygon R6012) which I knew is plasticizer free. This is black, very flexible, and very rubbery. I put the loop back together and used Mayhems X1 clear coolant (as I understand it, EKWB's coolants are made by Mayhems).
NOTE: When installing the pump I had made sure not to overtighten the pump top and used a thicker rubber o-ring.
Well, after ~1 year the pump starts to rattle all of a sudden, really, really loudly:
Pump's dead. It was obvious the impeller was hitting the body. The coolant looked clean with no sign of plasticizer or algae (see the reservoir in the video above). However, when I drained the loop, the coolant had turned black!

I had no idea where it was from, so I assumed it was all due to the metal polish. See below photos of the pump. Note the scratch marks on the pump shperical body, that's where the impeller was hitting. Quite horrible. Note also that the impeller on the damaged pump is lower than the one on the new pump -- the two pumps were identical when I bought them. This suggests that the impeller's axial plastic cage was essentially eaten away, causing the impeller to drop compared to a new identical D5. It looked like something caused the coolant to gain foreign particles which made the coolant abrasive enough such that the friction between the impeller and the little white ceramic tip in the pump's body to eat away the plastic cage from the impeller's axis, and cause the impeller to touch and scratch the body.

EDIT: note how thin the impeller's graphite became! Could this be caused by a bad design of the pump top that results in pressing on the impeller?

The CPU block has lost some of the nickel plating on the fins (I forgot to take photos when the block was open, but you can see still see that in the photos). The radiator doesn't look bad inside ... you can see the copper color.

Like I said, I assumed it was the metal polish. So off I go again into the clean + flush mode for 2 days, this time applying no metal polish at all. I get a new D5 pump and put the system together with the same tubing and fittings.
I buy a new D5 pump and put everythinig back together. After ~9 more months, yesterday, the same freaking thing happens again! Totally identical. Pump starts to rattle all of a sudden, coolent turned black. Open the pump up and the same scratch marks, and the same impeller that has receded and lowered into the body.
Before cleaning, I just flushed, then I inserted some thick paper towel inside fittings, block and tubing to see which has the most black residue. Interestingly, the tubing had the least black residue.
I got a 3rd new D5 pump, but before I order new components and put the loop back, I wanted to run a few questions by the real experts here:
I'd like to use a combination of items and coolant that can run without having to overhaul my entire loop every 9 months. This machine is supposed to run when I'm not home as well ...
Many thanks in advance for all help!
Photos from last year:

EDIT: tl;dr: some component in the loop is consistently turning my clear coolant black and has killed two D5 pumps in exactly the same way: the impeller's top part that sits on the ceramic baall is wearing out and eventually recedes into the pump body, scratching it (i now got a 3rd new pump). Possible causes:
- design flaw/fault of the old EKWB D5 pump top, resulting in the impeller being pressed (I have the 1st top version, EKWB released Rev2 then discontinued it)
- the Tygon norprene tubing (very rubbery)
- the nickel plating on the cpu block
- less likely: rad, fittings
details:
In August 2012 I built a loop with clear EKWB coolant, EKWB EK-Supremacy Full Nickel CPU block, EKWB nickel plated fittings (all of them, some black nickel, some normal nickel), a Laing D5 pump, the EKWB D5 black acetal pump top, a Phobya G-changer full copper 420 rad, and some cheap Masterkleer tubing (big mistake this one).
After 2-3 years of no _apparent_ problems, I discover that my temps were getting higher and higher. Opening the CPU block I see that the tubing leaked so much plasticizer that it clogged the CPU block. Long story short, I took everything apart, cleaned it very carefully and tediously, including fittings, washed and flushed the rad several times over several days (used soap, then also part vinegar solution), removed all plasticizer carefully from the CPU block fins, and I also applied some metal polish cream to the CPU block *as recommended by EKWB* for nickel plated blocks (I used T-Cut Original Metal Polish - which says it's suitable for all applications, including automotive and marine). From the EKWB website: "EK recommends the use of automotive soft, non-abrasive metal polish creams. After you finish using other cleaning methods, give the nickel plating a good polish with a non-abrasive metal or chrome polish."
I still don't know if applying the metal polish was a mistake or not ... anyway, I replaced all tubing with Norprene tubing (the Tygon R6012) which I knew is plasticizer free. This is black, very flexible, and very rubbery. I put the loop back together and used Mayhems X1 clear coolant (as I understand it, EKWB's coolants are made by Mayhems).
NOTE: When installing the pump I had made sure not to overtighten the pump top and used a thicker rubber o-ring.
Well, after ~1 year the pump starts to rattle all of a sudden, really, really loudly:
Pump's dead. It was obvious the impeller was hitting the body. The coolant looked clean with no sign of plasticizer or algae (see the reservoir in the video above). However, when I drained the loop, the coolant had turned black!
I had no idea where it was from, so I assumed it was all due to the metal polish. See below photos of the pump. Note the scratch marks on the pump shperical body, that's where the impeller was hitting. Quite horrible. Note also that the impeller on the damaged pump is lower than the one on the new pump -- the two pumps were identical when I bought them. This suggests that the impeller's axial plastic cage was essentially eaten away, causing the impeller to drop compared to a new identical D5. It looked like something caused the coolant to gain foreign particles which made the coolant abrasive enough such that the friction between the impeller and the little white ceramic tip in the pump's body to eat away the plastic cage from the impeller's axis, and cause the impeller to touch and scratch the body.
EDIT: note how thin the impeller's graphite became! Could this be caused by a bad design of the pump top that results in pressing on the impeller?
The CPU block has lost some of the nickel plating on the fins (I forgot to take photos when the block was open, but you can see still see that in the photos). The radiator doesn't look bad inside ... you can see the copper color.
Like I said, I assumed it was the metal polish. So off I go again into the clean + flush mode for 2 days, this time applying no metal polish at all. I get a new D5 pump and put the system together with the same tubing and fittings.
I buy a new D5 pump and put everythinig back together. After ~9 more months, yesterday, the same freaking thing happens again! Totally identical. Pump starts to rattle all of a sudden, coolent turned black. Open the pump up and the same scratch marks, and the same impeller that has receded and lowered into the body.
Before cleaning, I just flushed, then I inserted some thick paper towel inside fittings, block and tubing to see which has the most black residue. Interestingly, the tubing had the least black residue.
I got a 3rd new D5 pump, but before I order new components and put the loop back, I wanted to run a few questions by the real experts here:
- Could the Tygon R6012 Norprene tubing be leaking any black residue? I kind of suspect it ... I was looking to get either the Primochill LRT Advanced, or EKWB ZMT, or Mayhems Ultra Clear (all which are said to be plasticizer free)
- Some folks say (e.g. here) that (some) nickel plated blocks gradually lose the nicklet which flakes off and causes more issues than pure copper. Could this be a cause? I kind of doubt it (nickel is ferromagnetic so I woudl have found it all gathered up on the pump's impeller which has a strong magnet)
- Could it be the EKWB pump top? It's the original D5 top purchased in 2012. EKWB rleased Rev2 shortly after that. Is it possible that this top has a design flaw which causes too much pressure on the impeller, wich over time causes the impeller to recede?
- What else could be the cause?
- I'd like to get a new, all copper block...
- What about the fittings and rad?
- Any other advice?
I'd like to use a combination of items and coolant that can run without having to overhaul my entire loop every 9 months. This machine is supposed to run when I'm not home as well ...
Many thanks in advance for all help!
Photos from last year:
