It is important to distinguish between "different" and "perceptibly different". Pretty much any time one makes a change, it will be "different". This even includes items that were meant to be the same. It was not surprising to me that the three lids positions had different results. What isn't clear is if any of them are perceptibly different.
What I believe that the test needed to show is a comparison between the noise signal (i.e. the lid/chassis resonance at the cartridge) and the equivalent cartridge signal. The measured relative difference between these two is important. There are many studies that define what a typical human can differentiate. Something like this
https://www.ussi.com/acoustical-rules-and-demystifying-decibel.php (this was simply the first hit I noticed on Google). The good thing about running a test like this is that it takes the monkey out of the loop.
My postulation is that, at typical listening levels and room acoustics, the level differences between the signals, lid up/down/off, are lower than can be perceived. The problem with human judgement tests is that people will "hear" what they want to hear. Sort of like the audio equivalent of "these are not the droids you are looking for". ;-)
I have very good hearing, but I don't trust my brain to get it right. This is because I've tried running a test myself, then getting help from others and running a similar test double blind. The results were different.
Maybe someday I'll try to run my modified pro-jectusa test and know for sure.
Glitch