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How have you cleaned the 'new glass'? I recommend cleaning with a harsh alkaline cleanser, heating in an oven, and soaking in vinegar. Just because glass is new does not mean it is well prepared..
The vinegar bottle is just soft soda lime glass, but the display at the museum was boro-silicate. Both types haveworked well for years.
The EFH1 from Ferrotec is the gold standard; the stuff from other sources is sometimes diluted with excess kerosene. Cooking the ferrofluid reduces the amount of light molecular weight components of the kerosene, which I think contribute to staining. I recommend cooking down to get a fairly viscous ferrorluid; you will probably lose 20% of the original ferrofluid. I don't have quanititative data, partly because what I did worked so well. Let me know your results.
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