Paul,
Don't worry, I'm not confusing anything. It is the other way around: the point of the essay is that "observation of a particle" should not be confused with "observation of traces of a particle". If you claim that you have "observed" something, then that implies that you have proof of its existence: else you shouldn't claim an "observation". In the present case, the proof just isn't there: that is made clear in the essay. In particular, one should not confuse the notion of "proof" with "majority opinion": it is not the case that the experimental results amount to a proof of the existence of the Higgs boson because the majority of physicists is of the opinion that it is so.
Of course the Higgs boson is a constituent of the microsystem, not a property. Conventional quantum mechanics entails a Berkelian idealism with respect to properties: a substance (e.g. an electron) exists in absence of observation, but it has only definite properties (e.g. a position) upon a measurement of those properties. If the Higgs boson were a property, it thus wouldn't exist in absence of observation. Then the entire Higgs mechanism would be nonexistent.
I agree with you that the real issue is this: does the model correspond to reality? The EPR paper provides the language for describing that correspondence, and the conditions for using the terms of that language. Therefore, in the present case the outcome is, as mentioned in the essay, that the Standard Model has been found to be "correct" by the CMS experiment at the LHC. That is the language that should have been used, instead of this claim that the Higgs boson has been "observed".
Best regards,
Marcoen